Citrus Sinensis ID: 028507

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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-------21
Protein Sequence
MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGCSC
Secondary Structure (PSIPRED)
cccccccccccEEEEccccccHHHHHHHcccccccccccccccEEEEEcEEEEcccEEEEEEEEccccccccccHHHHHHcccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHEEEEEEEEEccccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcHHHHHHccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHccHHHcccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MAPVSALAKYKLVflgdqsvgktSIITRFMydkfdntyqaTIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIpsyirdssVAVVVYDVASrqsflntsKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAalpgmetlsstkqeEMVDVNlrsttgnasqsqsqssgcsc
Flexible Loop (DISEMBL)
MAPVSALAKYKlvflgdqsvgktSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSlipsyirdsSVAVVVYDVasrqsflntskwidevrtergsdviivlvgnktdlvekrqvsieegeaksrelNVMFIETsakagfniKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSttgnasqsqsqssgcsc
Low Complexity Region (SEG)
MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRdssvavvvydvasRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGNAsqsqsqssGCSC
Disordered region (IsUnstruct)
*****ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV**********ELNVMFIETSAKAGFNIKPLFRKIAAAL**************************************
Disordered Region (DISOPRED)
*****AL*KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA************************************SGCSC
Disordered Region (DISEMBL)
MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRS*****************
Disordered Region (DISPRO)
**PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGM***********************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGCSC
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	208	2.2.26 [Sep-21-2011]
O80501	208	Ras-related protein RABH1	yes	no	1.0	1.0	0.923	1e-111
Q9LFT9	207	Ras-related protein RABH1	no	no	0.995	1.0	0.865	1e-103
Q9SID8	207	Ras-related protein RABH1	no	no	0.995	1.0	0.855	1e-100
Q9SMR4	214	Ras-related protein RABH1	no	no	1.0	0.971	0.761	6e-88
Q5RAV6	208	Ras-related protein Rab-6	yes	no	0.956	0.956	0.746	8e-86
P20340	208	Ras-related protein Rab-6	yes	no	0.956	0.956	0.746	8e-86
Q9WVB1	208	Ras-related protein Rab-6	yes	no	0.961	0.961	0.735	1e-85
P35279	208	Ras-related protein Rab-6	yes	no	0.961	0.961	0.735	1e-85
Q1KME6	208	Ras-related protein Rab-6	yes	no	0.956	0.956	0.736	3e-85
P61294	208	Ras-related protein Rab-6	no	no	0.961	0.961	0.710	7e-84

>sp|O80501|RAH1B_ARATH Ras-related protein RABH1b OS=Arabidopsis thaliana GN=RABH1B PE=1 SV=1

 Score =  401 bits (1030), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 192/208 (92%), Positives = 201/208 (96%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVASRQSFLNT+KWIDEVRTERGSDVI+VLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQSFLNTTKWIDEVRTERGSDVIVVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLV+KRQVSIEE EAK+RELNVMFIETSAKAGFNIK LFRKIAAALPGMETLSSTK
Sbjct: 121 GNKTDLVDKRQVSIEEAEAKARELNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+S+  NAS +Q QS GCSC
Sbjct: 181 QEDMVDVNLKSSNANASLAQQQSGGCSC 208

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER). Binds GTP and GDP and possesses intrinsic GTPase activity.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFT9|RAH1E_ARATH Ras-related protein RABH1e OS=Arabidopsis thaliana GN=RABH1E PE=2 SV=1

 Score =  373 bits (957), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 180/208 (86%), Positives = 196/208 (94%), Gaps = 1/208 (0%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA VS LAKYKLVFLGDQSVGKTSIITRFMYDKFD TYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MASVSPLAKYKLVFLGDQSVGKTSIITRFMYDKFDTTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVA+RQSFLNTSKWI++VRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVANRQSFLNTSKWIEDVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLV+KRQVSIEEG+ K+R+  V+FIETSAKAGFNIKPLFRKIAAALPGMETLSSTK
Sbjct: 121 GNKTDLVDKRQVSIEEGDNKARDYGVIFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+ T+ N++Q + Q  GC+C
Sbjct: 181 QEDMVDVNLK-TSSNSAQGEQQRGGCAC 207

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SID8|RAH1D_ARATH Ras-related protein RABH1d OS=Arabidopsis thaliana GN=RABH1D PE=3 SV=1

 Score =  363 bits (932), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 178/208 (85%), Positives = 188/208 (90%), Gaps = 1/208 (0%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA VS LAKYKLVFLGDQSVGKTSIITRFMYDKFD TYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MASVSPLAKYKLVFLGDQSVGKTSIITRFMYDKFDTTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVA+R SFLNTSKWI+EVR ER  DVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVANRLSFLNTSKWIEEVRNERAGDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLVEKRQVSIEEG++K RE  VMFIETSAKAGFNIKPLFRKIAAALPGME+ S+TK
Sbjct: 121 GNKTDLVEKRQVSIEEGDSKGREYGVMFIETSAKAGFNIKPLFRKIAAALPGMESYSNTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
            E+MVDVNL+ T+ N+SQ   Q   CSC
Sbjct: 181 NEDMVDVNLKPTS-NSSQGDQQGGACSC 207

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SMR4|RAH1C_ARATH Ras-related protein RABH1c OS=Arabidopsis thaliana GN=RABH1C PE=1 SV=1

 Score =  323 bits (827), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 163/214 (76%), Positives = 183/214 (85%), Gaps = 6/214 (2%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA VS LAK+KLVFLGDQSVGKTSIITRFMYDKFD TYQ TIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MASVSPLAKFKLVFLGDQSVGKTSIITRFMYDKFDTTYQPTIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVL 119
           QLWDTAGQERFRSLIPSYIRDSSVA+VVYDV++RQ+FLNTSKWI++V  ERG S+VIIVL
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAIVVYDVSNRQTFLNTSKWIEDVHRERGQSNVIIVL 120

Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLS-S 178
           VGNKTDLVEKRQVSI EGE K +E  VMFIETSAK  FNIK LFRKIAAALPG+++ S +
Sbjct: 121 VGNKTDLVEKRQVSISEGEDKGKEYGVMFIETSAKENFNIKALFRKIAAALPGVDSYSLA 180

Query: 179 TKQEEMVDVNLRSTTGNA----SQSQSQSSGCSC 208
           TK ++MVDVNL++T+ ++            GCSC
Sbjct: 181 TKSDDMVDVNLKTTSNSSQGEQQGGAGGGGGCSC 214

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q5RAV6|RAB6A_PONAB Ras-related protein Rab-6A OS=Pongo abelii GN=RAB6A PE=2 SV=3

 Score =  316 bits (809), Expect = 8e-86,   Method: Compositional matrix adjust.
 Identities = 153/205 (74%), Positives = 175/205 (85%), Gaps = 6/205 (2%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 9   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 68

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIRDS+VAVVVYD+ +  SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 69  TAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 128

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 129 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 188

Query: 185 VDVNLRSTTGNASQSQSQS-SGCSC 208
           +D+ L        Q Q  S  GCSC
Sbjct: 189 IDIKLEK-----PQEQPVSEGGCSC 208

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Pongo abelii (taxid: 9601)

>sp|P20340|RAB6A_HUMAN Ras-related protein Rab-6A OS=Homo sapiens GN=RAB6A PE=1 SV=3

 Score =  316 bits (809), Expect = 8e-86,   Method: Compositional matrix adjust.
 Identities = 153/205 (74%), Positives = 175/205 (85%), Gaps = 6/205 (2%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 9   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 68

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIRDS+VAVVVYD+ +  SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 69  TAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 128

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 129 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 188

Query: 185 VDVNLRSTTGNASQSQSQS-SGCSC 208
           +D+ L        Q Q  S  GCSC
Sbjct: 189 IDIKLEK-----PQEQPVSEGGCSC 208

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER). Has a low GTPase activity.

Homo sapiens (taxid: 9606)

>sp|Q9WVB1|RAB6A_RAT Ras-related protein Rab-6A OS=Rattus norvegicus GN=Rab6a PE=2 SV=2

 Score =  315 bits (808), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 150/204 (73%), Positives = 173/204 (84%), Gaps = 4/204 (1%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 9   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 68

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIRDS+VAVVVYD+ +  SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 69  TAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 128

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 129 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 188

Query: 185 VDVNLRSTTGNASQSQSQSSGCSC 208
           +D+ L        +      GCSC
Sbjct: 189 IDIKLE----KPQEQPVNEGGCSC 208

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Rattus norvegicus (taxid: 10116)

>sp|P35279|RAB6A_MOUSE Ras-related protein Rab-6A OS=Mus musculus GN=Rab6a PE=1 SV=4

 Score =  315 bits (808), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 150/204 (73%), Positives = 173/204 (84%), Gaps = 4/204 (1%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 9   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 68

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIRDS+VAVVVYD+ +  SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 69  TAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 128

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 129 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 188

Query: 185 VDVNLRSTTGNASQSQSQSSGCSC 208
           +D+ L        +      GCSC
Sbjct: 189 IDIKLE----KPQEQPVNEGGCSC 208

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Mus musculus (taxid: 10090)

>sp|Q1KME6|RAB6A_CHICK Ras-related protein Rab-6A OS=Gallus gallus GN=RAB6A PE=2 SV=3

 Score =  314 bits (804), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 151/205 (73%), Positives = 174/205 (84%), Gaps = 6/205 (2%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWD
Sbjct: 9   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWD 68

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIRDS+ AVVVYD+ +  SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 69  TAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 128

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 129 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDKSREDM 188

Query: 185 VDVNLRSTTGNASQSQSQS-SGCSC 208
           +D+ L        Q Q  S  GCSC
Sbjct: 189 IDIKLEK-----PQEQPVSEGGCSC 208

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Gallus gallus (taxid: 9031)

>sp|P61294|RAB6B_MOUSE Ras-related protein Rab-6B OS=Mus musculus GN=Rab6b PE=1 SV=1

 Score =  309 bits (792), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 145/204 (71%), Positives = 172/204 (84%), Gaps = 4/204 (1%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 9   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 68

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIRDS+VAVVVYD+ +  SF  TSKWID+VRTERGSDVII+LVGNKT
Sbjct: 69  TAGQERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKT 128

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQ++IEEGE +++EL+VMFIETSAK G+N+K LFR++A+ALPGME +    +E M
Sbjct: 129 DLADKRQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASALPGMENVQEKSKEGM 188

Query: 185 VDVNLRSTTGNASQSQSQSSGCSC 208
           +D+ L        +  +   GCSC
Sbjct: 189 IDIKL----DKPQEPPASEGGCSC 208

Seems to have a role in retrograde membrane traffic at the level of the Golgi complex. May function in retrograde transport in neuronal cells.

Mus musculus (taxid: 10090)

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	208
224126375	208	predicted protein [Populus trichocarpa]	1.0	1.0	0.932	1e-111
623586	208	putative [Nicotiana tabacum]	1.0	1.0	0.932	1e-111
255571107	208	protein with unknown function [Ricinus c	1.0	1.0	0.932	1e-110
449461547	208	PREDICTED: ras-related protein RABH1b-li	1.0	1.0	0.932	1e-110
255575776	208	protein with unknown function [Ricinus c	1.0	1.0	0.927	1e-110
15224916	208	Ras-related protein RABH1B [Arabidopsis	1.0	1.0	0.923	1e-110
225453266	208	PREDICTED: ras-related protein RABH1b [V	1.0	1.0	0.923	1e-109
356497062	207	PREDICTED: ras-related protein RABH1b-li	0.995	1.0	0.932	1e-109
224067425	208	predicted protein [Populus trichocarpa]	1.0	1.0	0.918	1e-109
226498830	208	hypothetical protein [Zea mays] gi|19470	1.0	1.0	0.913	1e-108

>gi|224126375|ref|XP_002329538.1| predicted protein [Populus trichocarpa] gi|222870247|gb|EEF07378.1| predicted protein [Populus trichocarpa]

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 194/208 (93%), Positives = 205/208 (98%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT+RL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTIRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+V+DVASRQSFLNTSKWI+EVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVFDVASRQSFLNTSKWIEEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLVEKRQVSIEEGEAK+RELNVMFIETSAKAGFNIKPLFRKIAAALPGME LSSTK
Sbjct: 121 GNKTDLVEKRQVSIEEGEAKARELNVMFIETSAKAGFNIKPLFRKIAAALPGMEALSSTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+ST G+ASQ+Q+QS GC+C
Sbjct: 181 QEDMVDVNLKSTGGSASQNQAQSGGCAC 208

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|623586|gb|AAA74117.1| putative [Nicotiana tabacum]

 Score =  405 bits (1041), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 194/208 (93%), Positives = 202/208 (97%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTV L
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVAL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVASRQSFLNTSKWI+EVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQSFLNTSKWIEEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLVEKRQVSIEE EAK+RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSS K
Sbjct: 121 GNKTDLVEKRQVSIEEAEAKARELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSAK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+S+  NASQSQ+QS GC+C
Sbjct: 181 QEDMVDVNLKSSNANASQSQAQSGGCAC 208

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255571107|ref|XP_002526504.1| protein with unknown function [Ricinus communis] gi|223534179|gb|EEF35895.1| protein with unknown function [Ricinus communis]

 Score =  403 bits (1035), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 194/208 (93%), Positives = 203/208 (97%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVASRQSFLNTSKWI+EVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQSFLNTSKWIEEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLV+KRQVSIEEGEAK+R+LNVMFIETSAKAGFNIK LFRKIAAALPGMETLSSTK
Sbjct: 121 GNKTDLVDKRQVSIEEGEAKARDLNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+S+  NASQSQ QS GC+C
Sbjct: 181 QEDMVDVNLKSSNTNASQSQPQSGGCAC 208

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461547|ref|XP_004148503.1| PREDICTED: ras-related protein RABH1b-like [Cucumis sativus] gi|449528471|ref|XP_004171228.1| PREDICTED: ras-related protein RABH1b-like [Cucumis sativus]

 Score =  403 bits (1035), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 194/208 (93%), Positives = 202/208 (97%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAP SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPTSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVASRQ+FLNTSKWI+EVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQTFLNTSKWIEEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLVEKRQVSIEEGEAK+RELNVMFIETSAKAGFNIK LFRKIAAALPGMETLSSTK
Sbjct: 121 GNKTDLVEKRQVSIEEGEAKARELNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+ST   A+QSQ QSSGC+C
Sbjct: 181 QEDMVDVNLKSTGSGAAQSQPQSSGCAC 208

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575776|ref|XP_002528787.1| protein with unknown function [Ricinus communis] gi|223531790|gb|EEF33609.1| protein with unknown function [Ricinus communis]

 Score =  402 bits (1034), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 193/208 (92%), Positives = 204/208 (98%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+V+DVASRQ+FLNTSKWI+EVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVFDVASRQTFLNTSKWIEEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLVEKRQVSIEEGEAK+R+LNVMFIETSAKAGFNIK LFRKIAAALPGMETLSSTK
Sbjct: 121 GNKTDLVEKRQVSIEEGEAKARDLNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+ST+  ASQSQ+QS GC+C
Sbjct: 181 QEDMVDVNLKSTSKTASQSQAQSGGCAC 208

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15224916|ref|NP_181989.1| Ras-related protein RABH1B [Arabidopsis thaliana] gi|297828175|ref|XP_002881970.1| hypothetical protein ARALYDRAFT_903887 [Arabidopsis lyrata subsp. lyrata] gi|75318653|sp|O80501.1|RAH1B_ARATH RecName: Full=Ras-related protein RABH1b; Short=AtRABH1b; AltName: Full=Ras-related protein Rab6A; Short=AtRab6A gi|3341681|gb|AAC27463.1| putative small GTP-binding protein [Arabidopsis thaliana] gi|21593488|gb|AAM65455.1| putative small GTP-binding protein [Arabidopsis thaliana] gi|107738267|gb|ABF83670.1| At2g44610 [Arabidopsis thaliana] gi|110742258|dbj|BAE99055.1| putative small GTP-binding protein [Arabidopsis thaliana] gi|297327809|gb|EFH58229.1| hypothetical protein ARALYDRAFT_903887 [Arabidopsis lyrata subsp. lyrata] gi|330255353|gb|AEC10447.1| Ras-related protein RABH1B [Arabidopsis thaliana] gi|741994|prf||2008312A GTP-binding protein

 Score =  401 bits (1030), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 192/208 (92%), Positives = 201/208 (96%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVASRQSFLNT+KWIDEVRTERGSDVI+VLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQSFLNTTKWIDEVRTERGSDVIVVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLV+KRQVSIEE EAK+RELNVMFIETSAKAGFNIK LFRKIAAALPGMETLSSTK
Sbjct: 121 GNKTDLVDKRQVSIEEAEAKARELNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSTK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+S+  NAS +Q QS GCSC
Sbjct: 181 QEDMVDVNLKSSNANASLAQQQSGGCSC 208

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453266|ref|XP_002266653.1| PREDICTED: ras-related protein RABH1b [Vitis vinifera]

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 192/208 (92%), Positives = 202/208 (97%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVASRQSFLNT+KWI+EVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQSFLNTAKWIEEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLV+KRQVSIEEGEAK+R+LNVMFIETSAKAGFNIK LFRKIAAALPGMETLSS K
Sbjct: 121 GNKTDLVDKRQVSIEEGEAKARDLNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSAK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+S+  NASQSQ Q+ GCSC
Sbjct: 181 QEDMVDVNLKSSNTNASQSQPQAGGCSC 208

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356497062|ref|XP_003517383.1| PREDICTED: ras-related protein RABH1b-like [Glycine max]

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 194/208 (93%), Positives = 203/208 (97%), Gaps = 1/208 (0%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+VYDVASRQ+FLNT+KWI+EVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQTFLNTAKWIEEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLVEKRQVSIEEGEAK+RELNVMFIETSAKAGFNIK LFRKIAAALPGMETLSS K
Sbjct: 121 GNKTDLVEKRQVSIEEGEAKARELNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSAK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+STTG+A QSQ Q SGC+C
Sbjct: 181 QEDMVDVNLKSTTGSA-QSQPQPSGCAC 207

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067425|ref|XP_002302484.1| predicted protein [Populus trichocarpa] gi|222844210|gb|EEE81757.1| predicted protein [Populus trichocarpa]

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 191/208 (91%), Positives = 203/208 (97%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+V+DVASRQSFLNTSKWI+EVR+ERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVFDVASRQSFLNTSKWIEEVRSERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLV+KRQVSIEEGEAK+R+LNVMFIETSAKAGFNIK LFRKIAAALPGMETLSS+K
Sbjct: 121 GNKTDLVDKRQVSIEEGEAKARDLNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSSK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNL+S+  NASQSQ QS GC+C
Sbjct: 181 QEDMVDVNLKSSNANASQSQQQSGGCAC 208

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226498830|ref|NP_001142363.1| hypothetical protein [Zea mays] gi|194708444|gb|ACF88306.1| unknown [Zea mays] gi|414886777|tpg|DAA62791.1| TPA: hypothetical protein ZEAMMB73_332722 [Zea mays]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 190/208 (91%), Positives = 200/208 (96%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           QLWDTAGQERFRSLIPSYIRDSSVAV+V+DVASRQSFLNTSKWIDEVRTERGSDVIIVLV
Sbjct: 61  QLWDTAGQERFRSLIPSYIRDSSVAVIVFDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
           GNKTDLV+KRQVSIEEGE K+++L VMFIETSAKAGFNIK LFRKIAAALPGMETLSS K
Sbjct: 121 GNKTDLVDKRQVSIEEGEGKAKDLGVMFIETSAKAGFNIKALFRKIAAALPGMETLSSAK 180

Query: 181 QEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           QE+MVDVNLRS   N+SQSQ+Q+ GCSC
Sbjct: 181 QEDMVDVNLRSGNANSSQSQAQAGGCSC 208

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	208
TAIR|locus:2042321	208	RAB6A [Arabidopsis thaliana (t	1.0	1.0	0.846	2.5e-88
TAIR|locus:2145392	207	RABH1e "RAB GTPase homolog H1E	0.995	1.0	0.802	8.2e-83
TAIR|locus:2060415	207	RABH1d "RAB GTPase homolog H1D	0.995	1.0	0.783	7.6e-80
TAIR|locus:2140045	214	RABH1c "RAB GTPase homolog H1C	1.0	0.971	0.719	4.6e-73
UNIPROTKB|Q1KME6	208	RAB6A "Ras-related protein Rab	0.951	0.951	0.693	1.6e-70
UNIPROTKB|F1MBF6	208	RAB6A "Uncharacterized protein	0.951	0.951	0.693	1.6e-70
UNIPROTKB|P20340	208	RAB6A "Ras-related protein Rab	0.951	0.951	0.698	1.6e-70
UNIPROTKB|F1SUT0	208	RAB6A "Uncharacterized protein	0.951	0.951	0.693	1.6e-70
UNIPROTKB|Q5RAV6	208	RAB6A "Ras-related protein Rab	0.951	0.951	0.698	1.6e-70
ZFIN|ZDB-GENE-040426-2849	208	rab6a "RAB6A, member RAS oncog	0.951	0.951	0.693	1.6e-70

TAIR|locus:2042321 RAB6A [Arabidopsis thaliana (taxid:3702)]

 Score = 882 (315.5 bits), Expect = 2.5e-88, P = 2.5e-88
 Identities = 176/208 (84%), Positives = 183/208 (87%)

Query:     1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
             MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL
Sbjct:     1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60

Query:    61 QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLV 120
             QLWDTAGQERFRSLIPSYIR             RQSFLNT+KWIDEVRTERGSDVI+VLV
Sbjct:    61 QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVASRQSFLNTTKWIDEVRTERGSDVIVVLV 120

Query:   121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
             GNKTDLV+KRQVSIEE EAK+RELNVMFIETSAKAGFNIK LFRKIAAALPGMETLSSTK
Sbjct:   121 GNKTDLVDKRQVSIEEAEAKARELNVMFIETSAKAGFNIKALFRKIAAALPGMETLSSTK 180

Query:   181 QEEMVDVNLRSTTGNAXXXXXXXXGCSC 208
             QE+MVDVNL+S+  NA        GCSC
Sbjct:   181 QEDMVDVNLKSSNANASLAQQQSGGCSC 208

GO:0005525 "GTP binding" evidence=IEA;ISS;IDA

GO:0005794 "Golgi apparatus" evidence=ISM;IDA

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

GO:0015031 "protein transport" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0000139 "Golgi membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0005768 "endosome" evidence=IDA

GO:0005802 "trans-Golgi network" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0032940 "secretion by cell" evidence=IGI

TAIR|locus:2145392 RABH1e "RAB GTPase homolog H1E" [Arabidopsis thaliana (taxid:3702)]

 Score = 830 (297.2 bits), Expect = 8.2e-83, P = 8.2e-83
 Identities = 167/208 (80%), Positives = 179/208 (86%)

Query:     1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
             MA VS LAKYKLVFLGDQSVGKTSIITRFMYDKFD TYQATIGIDFLSKTMYLEDRTVRL
Sbjct:     1 MASVSPLAKYKLVFLGDQSVGKTSIITRFMYDKFDTTYQATIGIDFLSKTMYLEDRTVRL 60

Query:    61 QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLV 120
             QLWDTAGQERFRSLIPSYIR             RQSFLNTSKWI++VRTERGSDVIIVLV
Sbjct:    61 QLWDTAGQERFRSLIPSYIRDSSVAVIVYDVANRQSFLNTSKWIEDVRTERGSDVIIVLV 120

Query:   121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
             GNKTDLV+KRQVSIEEG+ K+R+  V+FIETSAKAGFNIKPLFRKIAAALPGMETLSSTK
Sbjct:   121 GNKTDLVDKRQVSIEEGDNKARDYGVIFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180

Query:   181 QEEMVDVNLRSTTGNAXXXXXXXXGCSC 208
             QE+MVDVNL+ T+ N+        GC+C
Sbjct:   181 QEDMVDVNLK-TSSNSAQGEQQRGGCAC 207

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

TAIR|locus:2060415 RABH1d "RAB GTPase homolog H1D" [Arabidopsis thaliana (taxid:3702)]

 Score = 802 (287.4 bits), Expect = 7.6e-80, P = 7.6e-80
 Identities = 163/208 (78%), Positives = 172/208 (82%)

Query:     1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
             MA VS LAKYKLVFLGDQSVGKTSIITRFMYDKFD TYQATIGIDFLSKTMYLEDRTVRL
Sbjct:     1 MASVSPLAKYKLVFLGDQSVGKTSIITRFMYDKFDTTYQATIGIDFLSKTMYLEDRTVRL 60

Query:    61 QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLV 120
             QLWDTAGQERFRSLIPSYIR             R SFLNTSKWI+EVR ER  DVIIVLV
Sbjct:    61 QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVANRLSFLNTSKWIEEVRNERAGDVIIVLV 120

Query:   121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
             GNKTDLVEKRQVSIEEG++K RE  VMFIETSAKAGFNIKPLFRKIAAALPGME+ S+TK
Sbjct:   121 GNKTDLVEKRQVSIEEGDSKGREYGVMFIETSAKAGFNIKPLFRKIAAALPGMESYSNTK 180

Query:   181 QEEMVDVNLRSTTGNAXXXXXXXXGCSC 208
              E+MVDVNL+ T+ N+         CSC
Sbjct:   181 NEDMVDVNLKPTS-NSSQGDQQGGACSC 207

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

TAIR|locus:2140045 RABH1c "RAB GTPase homolog H1C" [Arabidopsis thaliana (taxid:3702)]

 Score = 738 (264.8 bits), Expect = 4.6e-73, P = 4.6e-73
 Identities = 154/214 (71%), Positives = 169/214 (78%)

Query:     1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
             MA VS LAK+KLVFLGDQSVGKTSIITRFMYDKFD TYQ TIGIDFLSKTMYLEDRTVRL
Sbjct:     1 MASVSPLAKFKLVFLGDQSVGKTSIITRFMYDKFDTTYQPTIGIDFLSKTMYLEDRTVRL 60

Query:    61 QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERG-SDVIIVL 119
             QLWDTAGQERFRSLIPSYIR             RQ+FLNTSKWI++V  ERG S+VIIVL
Sbjct:    61 QLWDTAGQERFRSLIPSYIRDSSVAIVVYDVSNRQTFLNTSKWIEDVHRERGQSNVIIVL 120

Query:   120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLS-S 178
             VGNKTDLVEKRQVSI EGE K +E  VMFIETSAK  FNIK LFRKIAAALPG+++ S +
Sbjct:   121 VGNKTDLVEKRQVSISEGEDKGKEYGVMFIETSAKENFNIKALFRKIAAALPGVDSYSLA 180

Query:   179 TKQEEMVDVNLRSTT----GNAXXXXXXXXGCSC 208
             TK ++MVDVNL++T+    G          GCSC
Sbjct:   181 TKSDDMVDVNLKTTSNSSQGEQQGGAGGGGGCSC 214

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0000139 "Golgi membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0006984 "ER-nucleus signaling pathway" evidence=RCA

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

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

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

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

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

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

UNIPROTKB|Q1KME6 RAB6A "Ras-related protein Rab-6A" [Gallus gallus (taxid:9031)]

 Score = 714 (256.4 bits), Expect = 1.6e-70, P = 1.6e-70
 Identities = 140/202 (69%), Positives = 159/202 (78%)

Query:     7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
             L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWDTA
Sbjct:    11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTA 70

Query:    67 GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
             GQERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKTDL
Sbjct:    71 GQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 130

Query:   127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
              +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M+D
Sbjct:   131 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDKSREDMID 190

Query:   187 VNLRSTTGNAXXXXXXXXGCSC 208
             + L               GCSC
Sbjct:   191 IKLEKPQEQPVSEG----GCSC 208

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

GO:0005525 "GTP binding" evidence=IEA

GO:0000139 "Golgi membrane" evidence=IEA

GO:0000042 "protein targeting to Golgi" evidence=ISS

UNIPROTKB|F1MBF6 RAB6A "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 714 (256.4 bits), Expect = 1.6e-70, P = 1.6e-70
 Identities = 140/202 (69%), Positives = 159/202 (78%)

Query:     7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
             L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWDTA
Sbjct:    11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTA 70

Query:    67 GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
             GQERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKTDL
Sbjct:    71 GQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 130

Query:   127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
              +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M+D
Sbjct:   131 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMID 190

Query:   187 VNLRSTTGNAXXXXXXXXGCSC 208
             + L               GCSC
Sbjct:   191 IKLEKPQEQPVSEG----GCSC 208

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|P20340 RAB6A "Ras-related protein Rab-6A" [Homo sapiens (taxid:9606)]

 Score = 714 (256.4 bits), Expect = 1.6e-70, P = 1.6e-70
 Identities = 141/202 (69%), Positives = 159/202 (78%)

Query:     7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
             L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA
Sbjct:    11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 70

Query:    67 GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
             GQERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKTDL
Sbjct:    71 GQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 130

Query:   127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
              +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M+D
Sbjct:   131 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMID 190

Query:   187 VNLRSTTGNAXXXXXXXXGCSC 208
             + L               GCSC
Sbjct:   191 IKLEKPQEQPVSEG----GCSC 208

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

GO:0000139 "Golgi membrane" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0000042 "protein targeting to Golgi" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0005525 "GTP binding" evidence=IDA

GO:0003924 "GTPase activity" evidence=IDA

GO:0018125 "peptidyl-cysteine methylation" evidence=IDA

GO:0006890 "retrograde vesicle-mediated transport, Golgi to ER" evidence=TAS

GO:0034067 "protein localization to Golgi apparatus" evidence=IDA

GO:0031410 "cytoplasmic vesicle" evidence=IDA

GO:0005802 "trans-Golgi network" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0019904 "protein domain specific binding" evidence=IPI

GO:0072385 "minus-end-directed organelle transport along microtubule" evidence=TAS

GO:0006184 "GTP catabolic process" evidence=IDA;TAS

UNIPROTKB|F1SUT0 RAB6A "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 714 (256.4 bits), Expect = 1.6e-70, P = 1.6e-70
 Identities = 140/202 (69%), Positives = 159/202 (78%)

Query:     7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
             L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWDTA
Sbjct:    11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTA 70

Query:    67 GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
             GQERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKTDL
Sbjct:    71 GQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 130

Query:   127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
              +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M+D
Sbjct:   131 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMID 190

Query:   187 VNLRSTTGNAXXXXXXXXGCSC 208
             + L               GCSC
Sbjct:   191 IKLEKPQEQPVSEG----GCSC 208

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|Q5RAV6 RAB6A "Ras-related protein Rab-6A" [Pongo abelii (taxid:9601)]

 Score = 714 (256.4 bits), Expect = 1.6e-70, P = 1.6e-70
 Identities = 141/202 (69%), Positives = 159/202 (78%)

Query:     7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
             L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA
Sbjct:    11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 70

Query:    67 GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
             GQERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKTDL
Sbjct:    71 GQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 130

Query:   127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
              +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M+D
Sbjct:   131 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMID 190

Query:   187 VNLRSTTGNAXXXXXXXXGCSC 208
             + L               GCSC
Sbjct:   191 IKLEKPQEQPVSEG----GCSC 208

GO:0000042 "protein targeting to Golgi" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0005794 "Golgi apparatus" evidence=ISS

GO:0006184 "GTP catabolic process" evidence=ISS

ZFIN|ZDB-GENE-040426-2849 rab6a "RAB6A, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 714 (256.4 bits), Expect = 1.6e-70, P = 1.6e-70
 Identities = 140/202 (69%), Positives = 159/202 (78%)

Query:     7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
             L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWDTA
Sbjct:    11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTA 70

Query:    67 GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
             GQERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKTDL
Sbjct:    71 GQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 130

Query:   127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
              +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M+D
Sbjct:   131 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDKSREDMID 190

Query:   187 VNLRSTTGNAXXXXXXXXGCSC 208
             + L               GCSC
Sbjct:   191 IKLEKPPEQPVSEG----GCSC 208

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

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)
Q1KME6	RAB6A_CHICK	No assigned EC number	0.7365	0.9567	0.9567	yes	no
P61294	RAB6B_MOUSE	No assigned EC number	0.7107	0.9615	0.9615	no	no
P34213	RAB6A_CAEEL	No assigned EC number	0.7227	0.9567	0.9707	yes	no
P35279	RAB6A_MOUSE	No assigned EC number	0.7352	0.9615	0.9615	yes	no
Q9SID8	RAH1D_ARATH	No assigned EC number	0.8557	0.9951	1.0	no	no
A6QR46	RAB6B_BOVIN	No assigned EC number	0.7107	0.9615	0.9615	no	no
O80501	RAH1B_ARATH	No assigned EC number	0.9230	1.0	1.0	yes	no
Q55FK2	RAB6_DICDI	No assigned EC number	0.7058	0.9807	0.9807	yes	no
Q22782	RAB6B_CAEEL	No assigned EC number	0.8165	0.8125	0.8243	no	no
Q5RAV6	RAB6A_PONAB	No assigned EC number	0.7463	0.9567	0.9567	yes	no
P17608	RYH1_SCHPO	No assigned EC number	0.6995	0.9326	0.9651	yes	no
Q9WVB1	RAB6A_RAT	No assigned EC number	0.7352	0.9615	0.9615	yes	no
Q99260	YPT6_YEAST	No assigned EC number	0.5693	0.9759	0.9441	yes	no
P20340	RAB6A_HUMAN	No assigned EC number	0.7463	0.9567	0.9567	yes	no
Q9NRW1	RAB6B_HUMAN	No assigned EC number	0.7107	0.9615	0.9615	no	no
Q9LFT9	RAH1E_ARATH	No assigned EC number	0.8653	0.9951	1.0	no	no
Q9SMR4	RAH1C_ARATH	No assigned EC number	0.7616	1.0	0.9719	no	no
Q9LV79	RAH1A_ARATH	No assigned EC number	0.7537	0.9567	0.9660	no	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	208
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-115
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	4e-81
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	1e-80
pfam00071	162	pfam00071, Ras, Ras family	2e-76
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-72
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	2e-69
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	5e-60
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-55
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-55
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	4e-55
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	1e-53
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	2e-50
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-49
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	3e-48
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	6e-48
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	2e-45
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	3e-45
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	4e-43
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	6e-43
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	1e-42
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-42
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	2e-42
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	7e-42
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	1e-41
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	2e-41
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	1e-40
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	3e-40
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-40
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	5e-40
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	4e-39
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	4e-38
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	7e-38
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	3e-37
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	7e-36
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	5e-35
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	8e-35
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-33
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	9e-33
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	1e-32
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	1e-32
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-32
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	4e-32
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	2e-31
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	3e-31
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	1e-29
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-29
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	3e-29
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	7e-29
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-28
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-28
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	6e-27
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	1e-26
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	2e-26
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	5e-26
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	6e-26
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	1e-25
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	2e-25
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	4e-25
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	9e-25
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-24
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-24
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	6e-24
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	1e-23
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	2e-23
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	7e-23
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-22
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	5e-22
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	7e-22
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	1e-21
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	1e-21
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	2e-21
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	2e-21
pfam08477	116	pfam08477, Miro, Miro-like protein	3e-20
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	8e-20
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	3e-19
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	9e-19
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	2e-18
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	1e-16
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	2e-16
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	7e-16
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	3e-14
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	7e-14
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	3e-13
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	5e-13
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	2e-12
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	3e-12
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	7e-11
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	7e-10
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	2e-09
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	6e-08
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	1e-07
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	2e-07
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	4e-07
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	5e-07
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	6e-07
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	3e-06
cd00880	161	cd00880, Era_like, E	1e-05
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	2e-05
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	2e-05
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	4e-05
pfam02421	190	pfam02421, FeoB_N, Ferrous iron transport protein	4e-05
cd01879	159	cd01879, FeoB, Ferrous iron transport protein B (F	9e-05
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	9e-05
cd01895	174	cd01895, EngA2, EngA2 GTPase contains the second d	1e-04
TIGR03918	391	TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster	1e-04
cd04164	159	cd04164, trmE, trmE is a tRNA modification GTPase	2e-04
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	2e-04
pfam04670	230	pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserve	6e-04
PRK05291	449	PRK05291, trmE, tRNA modification GTPase TrmE; Rev	0.001
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	0.001
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	0.001
cd04105	202	cd04105, SR_beta, Signal recognition particle rece	0.001
PRK00089	292	PRK00089, era, GTPase Era; Reviewed	0.002
cd04163	168	cd04163, Era, E	0.002
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	0.003
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	0.003
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	0.003

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  324 bits (833), Expect = e-115
 Identities = 134/161 (83%), Positives = 147/161 (91%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLVFLGDQSVGKTSIITRFMYD FDN YQATIGIDFLSKTMY++D+TVRLQLWDTAGQE
Sbjct: 1   HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRSLIPSYIRDSSVAVVVYD+ +RQSF NT KWID+VR ERG+DVIIVLVGNKTDL +K
Sbjct: 61  RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK 120

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           RQVS EEGE K++E N MFIETSAKAG N+K LF+KIA AL
Sbjct: 121 RQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 161

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 Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

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

 Score =  238 bits (610), Expect = 4e-81
 Identities = 75/158 (47%), Positives = 113/158 (71%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD  VGK+S+++RF   KF   Y++TIG+DF +KT+ ++ + V+LQ+WDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R +  A++VYD+ +R+SF N   W+ E+R     +V+I+LVGNK+DL E+
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQ 120

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           RQVS EE EA + E  + F ETSAK   N++  F ++A
Sbjct: 121 RQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELA 158

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  237 bits (607), Expect = 1e-80
 Identities = 76/158 (48%), Positives = 115/158 (72%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGKTS++ RF+ +KF   Y++TIG+DF SKT+ ++ + V+LQ+WDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R +  A++VYDV +R+SF N  KW++E++     ++ I+LVGNK+DL ++
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDE 120

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           RQVS EE +  ++E  ++F ETSAK G N+   F  +A
Sbjct: 121 RQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLA 158

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

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

 Score =  226 bits (578), Expect = 2e-76
 Identities = 79/161 (49%), Positives = 112/161 (69%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV +GD  VGK+S++ RF  +KF   Y  TIG+DF +KT+ ++ +TV+LQ+WDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           FR+L P Y R +   ++VYD+ SR SF N  KW++E+      +V IVLVGNK DL ++R
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQR 120

Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
            VS EEGEA ++EL + F+ETSAK   N++  F ++A  + 
Sbjct: 121 VVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREIL 161

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

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  217 bits (553), Expect = 1e-72
 Identities = 110/179 (61%), Positives = 137/179 (76%), Gaps = 3/179 (1%)

Query: 30  MYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY 89
           MYD FDN YQ+TIGIDFLSKT+YL++  VRLQLWDTAGQERFRSLIPSYIRDS+ A+VVY
Sbjct: 1   MYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVY 60

Query: 90  DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFI 149
           D+ +RQSF NT+KWI ++  ERG DVII LVGNKTDL + R+V+ EEG  K++E N MF 
Sbjct: 61  DITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFH 120

Query: 150 ETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGCSC 208
           ETSAKAG NIK LF+KIAA LP ++  S++    +VD+ L  T  + +  ++  S C C
Sbjct: 121 ETSAKAGHNIKVLFKKIAAKLPNLDN-SNSNDANVVDIQL--TNNSNANDKNMLSKCMC 176

Length = 176

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score =  208 bits (533), Expect = 2e-69
 Identities = 78/163 (47%), Positives = 113/163 (69%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV LGD SVGK+SI+ RF+ ++F    ++TIG  FL++T+ L+D TV+ ++WDTAGQ
Sbjct: 1   QFKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQ 60

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ER+RSL P Y R ++ A+VVYD+ S +SF     W+ E++     +++I L GNK DL  
Sbjct: 61  ERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLES 120

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           KRQVS EE +  + E  ++F+ETSAK G N+  LF +IA  LP
Sbjct: 121 KRQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARKLP 163

The Rab5-related 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 motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  184 bits (470), Expect = 5e-60
 Identities = 64/161 (39%), Positives = 101/161 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V LG+  VGKTS++ R++ +KF+  +++T    F  KT+ +  + + L +WDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+ +L P Y RD+  A++VYD+    SF    KWI E++  RG+++ +V+VGNK DL  +
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQ 120

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R VS  E E  ++ +     ETSAK G  I+ LF  +A  +
Sbjct: 121 RVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161

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 at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score =  173 bits (442), Expect = 1e-55
 Identities = 60/157 (38%), Positives = 111/157 (70%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++T+ ++ +T++ Q+WDTAGQE
Sbjct: 4   FKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQE 63

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +  A++VYD+  + +F N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 64  RYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDLRHL 123

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  EE +A + +  + FIETSA  G N++  F+++
Sbjct: 124 RAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQL 160

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-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  172 bits (439), Expect = 2e-55
 Identities = 68/159 (42%), Positives = 103/159 (64%), Gaps = 2/159 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ +GD  VGK+S++ RF  D FD    +TIG+DF  KT+ ++ + V+L +WDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRT-ERGSDVIIVLVGNKTDLVE 128
           RFR+L  SY R +   ++VYDV  R +F N   W++E+ T     D + +LVGNK D  E
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDK-E 119

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            R+V+ EEG+  +R+ N++FIETSAK    ++  F ++ 
Sbjct: 120 NREVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELV 158

Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score =  172 bits (438), Expect = 4e-55
 Identities = 71/158 (44%), Positives = 105/158 (66%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D F+ ++ +TIGIDF  +T+ L+ + ++LQ+WDTAGQE
Sbjct: 4   FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQE 63

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R +   ++VYD+   +SF N   W+  +      DV  +LVGNK D+ EK
Sbjct: 64  RFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDMEEK 123

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R VS EEGEA +RE  + F+ETSAKA  N++  F  +A
Sbjct: 124 RVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLA 161

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 inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 167

>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog Ypt1

 Score =  168 bits (428), Expect = 1e-53
 Identities = 66/161 (40%), Positives = 104/161 (64%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +TV+LQ+WDTAGQE
Sbjct: 3   FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQE 62

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R +   ++VYDV  ++SF N  +W+ E+      +V  +LVGNK DL +K
Sbjct: 63  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDK 122

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V   E +  + EL + F+ETSAK   N++  F  +A  +
Sbjct: 123 KVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREI 163

Rab1/Ypt1 subfamily. 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  160 bits (407), Expect = 2e-50
 Identities = 65/162 (40%), Positives = 102/162 (62%), Gaps = 1/162 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD +VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+WDTAGQE
Sbjct: 4   FKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTAGQE 63

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R ++ A++ YD+  R SF +   WI+EV     S+V+++L+GNK DL E+
Sbjct: 64  RFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQ 123

Query: 130 RQVSIEEGEAKSRELNVMF-IETSAKAGFNIKPLFRKIAAAL 170
           R+V  EE    +    ++  +ETSAK   N++  F  +A  L
Sbjct: 124 REVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 165

Rab19 subfamily. 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 characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  158 bits (402), Expect = 1e-49
 Identities = 63/158 (39%), Positives = 104/158 (65%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G    GK+ ++ +F+ +KF      TIG++F S+ + +  ++V+LQ+WDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R ++ A++VYD+ SR+SF   + W+ + RT    D++I+LVGNK DL + 
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDD 120

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R+V+  E    ++E  ++F+ETSA  G N++  F K A
Sbjct: 121 REVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCA 158

Rab4 subfamily. 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 promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases)

 Score =  154 bits (392), Expect = 3e-48
 Identities = 63/158 (39%), Positives = 89/158 (56%), Gaps = 2/158 (1%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV LG   VGK+++  RF+  +F   Y  TI  D   K + ++  T  L + DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEK 129
           F ++   YIR+    ++VY + SR+SF       +++   +  + + IVLVGNK DL  +
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE 119

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           RQVS EEGEA + E    F+ETSAK   NI  LF  + 
Sbjct: 120 RQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLV 157

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 most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 160

>gnl|CDD|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  154 bits (391), Expect = 6e-48
 Identities = 62/161 (38%), Positives = 108/161 (67%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   +F   +  TIG++F ++ + ++ + ++LQ+WDTAGQE
Sbjct: 5   FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQE 64

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            FRS+  SY R ++ A++VYD+  R++F + + W+++ R    S++ I+L+GNK DL  +
Sbjct: 65  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESR 124

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+VS EEGEA +RE  ++F+ETSAK   N++  F   A  +
Sbjct: 125 REVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEI 165

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 feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 168

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  148 bits (375), Expect = 2e-45
 Identities = 72/164 (43%), Positives = 103/164 (62%), Gaps = 7/164 (4%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ LGD  VGKTS++ +++  KF N Y+ATIG DFL+K + ++DR V LQ+WDTAGQE
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVR----TERGSDVIIVLVGNKTD 125
           RF+SL  ++ R +   V+VYDV + +SF +   W DE           +   V++GNK D
Sbjct: 61  RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKID 120

Query: 126 LVEKRQVSIEEGEA--KSRELNVMFIETSAKAGFNIKPLFRKIA 167
           L EKRQVS ++ +   KS+  N+ + ETSAK   N+   F  IA
Sbjct: 121 LEEKRQVSTKKAQQWCKSKG-NIPYFETSAKEAINVDQAFETIA 163

Rab7 subfamily. 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-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score =  148 bits (374), Expect = 3e-45
 Identities = 76/200 (38%), Positives = 116/200 (58%), Gaps = 13/200 (6%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +K++ +GD  VGKT ++ RF    F   ++ AT+GI F +K + ++   V+LQ+WDTAGQ
Sbjct: 1   FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQ 60

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ERFRS+  +Y RD+   +++YDV ++ SF N   W+ E+     SDV+I+L+GNK D+  
Sbjct: 61  ERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSG 120

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP--GMETLSSTKQEEMVD 186
           +R V  E+GE  ++E  V F+ETSAK G N++  F  +A  L    +E     K +    
Sbjct: 121 ERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRSVEQPDEPKFKIQDY 180

Query: 187 VNLRSTTGNASQSQSQSSGC 206
           V            Q +SSGC
Sbjct: 181 VE----------KQKKSSGC 190

Rab26 subfamily. 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. Length = 191

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score =  143 bits (362), Expect = 4e-43
 Identities = 65/206 (31%), Positives = 102/206 (49%), Gaps = 13/206 (6%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAGQ 68
           +K++ +GD  VGKTSII R+++  F   Y+ATIG+DF  K +  +  T VRLQLWD AGQ
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW---ID-EVRTERGSDVIIVLVGNKT 124
           ERF  +   Y + +  A++V+DV    +F    KW   +D +V    G  +  +L+ NK 
Sbjct: 61  ERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKC 120

Query: 125 DLVEKR-QVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQE 182
           DL ++R     E+ +   +E   + + ETSAK   NI+   R +       + +    + 
Sbjct: 121 DLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLV------KNILKNDKG 174

Query: 183 EMVDVNLRSTTGNASQSQSQSSGCSC 208
                       +  Q  + S   SC
Sbjct: 175 LQSPEPDEDNVIDLKQETTTSKSKSC 200

Rab38/Rab32 subfamily. 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. Length = 201

>gnl|CDD|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  143 bits (361), Expect = 6e-43
 Identities = 69/209 (33%), Positives = 122/209 (58%), Gaps = 18/209 (8%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   +F   +  TIG++F ++ + ++++ ++LQ+WDTAGQE
Sbjct: 7   FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQE 66

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            FRS+  SY R ++ A++VYD+  R++F + + W+++ R    +++ I+L+GNK DL  +
Sbjct: 67  SFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHR 126

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNL 189
           R VS EEGE  ++E  ++F+E SAK   N++  F K AA       +    Q+ + DV+ 
Sbjct: 127 RAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAA------KIYKKIQDGVFDVSN 180

Query: 190 RS------------TTGNASQSQSQSSGC 206
            S             +G    + SQ  GC
Sbjct: 181 ESYGIKVGYGAIPGASGGRDGTSSQGGGC 209

Length = 210

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  142 bits (360), Expect = 1e-42
 Identities = 63/161 (39%), Positives = 107/161 (66%), Gaps = 2/161 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAG 67
           +++L+ +GD +VGK+S++ RF   +F      T+G+DF S+ + +E    ++LQLWDTAG
Sbjct: 2   QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAG 61

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDL 126
           QERFRS+  SY R+S   ++V+D+ +R+SF +   W++E R+  +    + +LVG+K DL
Sbjct: 62  QERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDL 121

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
             +RQV+ EE E  +++L + +IETSA+ G N++  F  + 
Sbjct: 122 ESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLT 162

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. Length = 211

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

 Score =  142 bits (359), Expect = 2e-42
 Identities = 75/218 (34%), Positives = 111/218 (50%), Gaps = 21/218 (9%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++K+V LGD  VGKT+++ R + D+F   Y  TIG    +KT+    R ++LQLWDTAGQ
Sbjct: 5   EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQ 64

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFL-NTSKWIDEVRTERGSDVIIVLVGNKTDLV 127
           E +RSL P Y R ++  ++VYD   R+S    T +W++E+R     DV I+LVGNK DL 
Sbjct: 65  EEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLF 124

Query: 128 EKRQVSIEEGEAKSREL---------------NVMFIETSAKA--GFNIKPLFRKIAAAL 170
           +++  S E     +RE+               N   +ETSAK+  G N+  LF+++   L
Sbjct: 125 DEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKL 184

Query: 171 PGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGCSC 208
                    K E      L +      Q+   S  C  
Sbjct: 185 LEEIEKLVLKNELRQLDRLNN---PIEQAALASFNCVL 219

Length = 219

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  140 bits (354), Expect = 2e-42
 Identities = 65/161 (40%), Positives = 101/161 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +G+  VGKT ++ RF    F     ATIG+DF+ KT+ ++   ++LQ+WDTAGQE
Sbjct: 8   FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQE 67

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R ++  ++ YD+   +SF    +W+ E+     + VI +LVGNK DL E+
Sbjct: 68  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAER 127

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+VS +  E  S   ++ ++ETSAK   N++ LF  +A  L
Sbjct: 128 REVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168

Rab30 subfamily. 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. Length = 169

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  140 bits (354), Expect = 7e-42
 Identities = 62/157 (39%), Positives = 110/157 (70%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK++I++RF  ++F    ++TIG++F ++T+ +E +TV+ Q+WDTAGQE
Sbjct: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +  A++VYD+  RQ+F N  +W+ E+R    S+++I++ GNK+DL   
Sbjct: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHL 132

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V+ E+G+A + +  + F+ETSA    N++  F+ I
Sbjct: 133 RSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTI 169

Length = 216

>gnl|CDD|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score =  138 bits (348), Expect = 1e-41
 Identities = 60/157 (38%), Positives = 101/157 (64%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+ SVGKTS + R+  D F + + +T+GIDF  KT+Y  D+ ++LQ+WDTAGQE
Sbjct: 2   FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQE 61

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +   +++YD+ + +SF     W  +++T    +  ++LVGNK D+ ++
Sbjct: 62  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDE 121

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R VS E G   + +L   F E SAK   N+K +F ++
Sbjct: 122 RVVSAERGRQLADQLGFEFFEASAKENINVKQVFERL 158

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 promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  138 bits (348), Expect = 2e-41
 Identities = 57/158 (36%), Positives = 99/158 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   KF      TIG++F ++ + +  + ++LQ+WDTAGQE
Sbjct: 3   FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQE 62

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R ++ A++VYD+  R ++ + S W+ + R     + +I L+GNK DL  +
Sbjct: 63  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQ 122

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R V+ EE +  + E  ++F+E SAK G N++  F + A
Sbjct: 123 RDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETA 160

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 GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  135 bits (342), Expect = 1e-40
 Identities = 61/160 (38%), Positives = 95/160 (59%), Gaps = 3/160 (1%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR--TVRLQLWDTAGQ 68
           K++ +G+ +VGK+S+I RF+   F   Y+ TIG+DFL K ++L      VRL LWDTAGQ
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           E F ++  +Y R +   ++V+    R+SF     W ++V  E G D+ +VLV  K DL++
Sbjct: 62  EEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLD 120

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA 168
           +  ++ EE EA ++ L +    TS K  FN+  LF  +A 
Sbjct: 121 QAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAE 160

Rab23-like subfamily. 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) signaling 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 GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  136 bits (343), Expect = 3e-40
 Identities = 67/192 (34%), Positives = 111/192 (57%), Gaps = 6/192 (3%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+S++ RF  + F  +Y  TIG+DF  +T+ +    V+LQ+WDTAGQE
Sbjct: 7   FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQE 66

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVII-VLVGNKTDLVE 128
           RFR++  +Y R +   +VVYDV + +SF+N  +W+ E+  E+  D +  VLVGNK D  E
Sbjct: 67  RFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEI--EQNCDDVCKVLVGNKNDDPE 124

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA--ALPGMETLSSTKQEEMVD 186
           ++ V  E+    + ++ +   ETSAK   N++ +F  I         + L+  +Q++  D
Sbjct: 125 RKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDNLAKQQQQQQND 184

Query: 187 VNLRSTTGNASQ 198
           V       +  +
Sbjct: 185 VVK-LPKNSKRK 195

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 essential for membrane attachment, a key feature of most Rab proteins. Length = 199

>gnl|CDD|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  134 bits (340), Expect = 3e-40
 Identities = 60/156 (38%), Positives = 87/156 (55%), Gaps = 2/156 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YKLV LG   VGK+++  +F+   F + Y  TI  D   K + ++     L + DTAGQE
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 59

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
            F ++   Y+R     ++VY +  RQSF    K+ +++ R +   DV IVLVGNK DL  
Sbjct: 60  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLES 119

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR 164
           +R VS EEG+  +R+    F+ETSAK   N+   F 
Sbjct: 120 ERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFY 155

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. Length = 164

>gnl|CDD|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  133 bits (338), Expect = 5e-40
 Identities = 60/156 (38%), Positives = 88/156 (56%), Gaps = 2/156 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YKLV LG   VGK+++  +F+   F + Y  TI  D   K + ++     L + DTAGQE
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 61

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
            F ++   Y+R     ++VY +  RQSF   +K+ +++ R +   DV IVLVGNK DL  
Sbjct: 62  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLEN 121

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR 164
           +R VS EEG+  +R+    F+ETSAK   N+   F 
Sbjct: 122 ERVVSTEEGKELARQWGCPFLETSAKERINVDEAFY 157

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily. Length = 166

>gnl|CDD|206700 cd04127, Rab27A, Rab GTPase family 27a (Rab27a)

 Score =  132 bits (333), Expect = 4e-39
 Identities = 61/161 (37%), Positives = 95/161 (59%), Gaps = 11/161 (6%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT----------VRL 60
           KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +    +           V L
Sbjct: 6   KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVHL 65

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVL 119
           QLWDTAGQERFRSL  ++ RD+   ++++D+ S QSFLN   W+ +++     +   IVL
Sbjct: 66  QLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIVL 125

Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK 160
           +GNK DL ++R+VS  +    + +  + + ETSA  G N++
Sbjct: 126 IGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVE 166

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 insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 180

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score =  129 bits (327), Expect = 4e-38
 Identities = 64/185 (34%), Positives = 101/185 (54%), Gaps = 7/185 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           K+V LG +SVGKTS++ R+++ +F    YQ TIG  F++K M + +R V L +WDTAG E
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+ ++   Y R +  A+V YD+    SF     W+ E++        I L G K+DL+E+
Sbjct: 62  RYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQ 120

Query: 130 ----RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMV 185
               RQV   + +  + E+     ETS+K G N+  LF+K+A         +    E+ V
Sbjct: 121 DRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSR-ANNQMNTEKGV 179

Query: 186 DVNLR 190
           D+  +
Sbjct: 180 DLGQK 184

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 facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 193

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score =  128 bits (324), Expect = 7e-38
 Identities = 58/148 (39%), Positives = 89/148 (60%), Gaps = 2/148 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD +VGKT +  RF   +F    +ATIG+DF  +T+ ++   +++QLWDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62

Query: 70  RFR-SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLV 127
           RFR S++  Y R+    V VYDV +  SF +   WI+E       ++V  +LVGNK DL 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR 122

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKA 155
           E+ QV  +  +  +   ++   ETSAK 
Sbjct: 123 EQIQVPTDLAQRFADAHSMPLFETSAKD 150

Rab33B/Rab33A subfamily. 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 nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score =  128 bits (323), Expect = 3e-37
 Identities = 72/216 (33%), Positives = 109/216 (50%), Gaps = 23/216 (10%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQ 68
            K+V LGD + GKTS+I RF  + F  +Y+ TIG+DF S+ + L     V LQ+WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW---IDEVRTERGSDVIIVLVGNKTD 125
           +    ++  YI  +    +VYD+ + QSF N   W   + +V  E  +   +VLVGNKTD
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM- 184
           L   RQV+ E+    ++E ++  I  SAK G  +   F++IAA L G++      Q E+ 
Sbjct: 121 LEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAELLGVK----LSQAELE 176

Query: 185 --------VDVN-----LRSTTGNASQSQSQSSGCS 207
                            LR     +   +S +S C+
Sbjct: 177 QSQRVVKADVSRYSERTLREPVSRSVNKRS-NSMCA 211

Rab28 subfamily. 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 presumably 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 are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 213

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score =  123 bits (312), Expect = 7e-36
 Identities = 56/167 (33%), Positives = 90/167 (53%), Gaps = 17/167 (10%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD +VGKT ++  +  +KF   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 2   KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEE 60

Query: 71  FRSLIP-SYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           +  L P SY   + V ++ + V S  SF N  +KW  E++     +V I+LVG K DL +
Sbjct: 61  YDRLRPLSY-PQTDVFLLCFSVDSPSSFENVKTKWYPEIK-HYCPNVPIILVGTKIDLRD 118

Query: 129 -----------KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
                      ++ ++ EEGE  ++E+  V ++E SA     +K +F
Sbjct: 119 DGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVF 165

Members of the Rho (Ras homology) 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 proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  121 bits (304), Expect = 5e-35
 Identities = 60/158 (37%), Positives = 100/158 (63%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           ++L+ +GD  VGKT ++ RF  ++F +++ +TIG+DF  KT+ ++   VR+Q+WDTAGQE
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R++++   Y R +    +VYD++S +S+ +  KW+ +V       V  +L+GNK D  +K
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQK 120

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           RQV  E+G   ++E  + F ETSA    NIK  F ++ 
Sbjct: 121 RQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLT 158

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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  121 bits (304), Expect = 8e-35
 Identities = 63/158 (39%), Positives = 91/158 (57%), Gaps = 6/158 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ LGD  VGK+S++ R++ +KFD     TIG++FL+K + ++   V LQ+WDTAGQER
Sbjct: 7   KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQER 66

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE----VRTERGSDVIIVLVGNKTDL 126
           FRSL   + R S   ++ + V   QSF N S W  E       +       V++GNK D 
Sbjct: 67  FRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID- 125

Query: 127 VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           + +RQVS EE +A  R+     + ETSAK   N+   F
Sbjct: 126 IPERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 163

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, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score =  117 bits (295), Expect = 1e-33
 Identities = 49/158 (31%), Positives = 86/158 (54%), Gaps = 5/158 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ +G+  VGK+ II R+   +F + Y  TIGID+  K + + ++ VR+  +D +G   
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS-----DVIIVLVGNKTD 125
           +  +   + +D+   ++VYDV  RQSF     W+ E++ E G      ++++V+  NK D
Sbjct: 62  YLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKID 121

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L + R VS +EG   +      + ETSA  G  +  +F
Sbjct: 122 LTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMF 159

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. Length = 168

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  117 bits (293), Expect = 9e-33
 Identities = 63/160 (39%), Positives = 98/160 (61%), Gaps = 3/160 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD  VGK+S++  F+    ++    TIG+DF  K + +  + ++L +WDTAGQE
Sbjct: 15  FKILLIGDSGVGKSSLLVSFISSSVEDL-APTIGVDFKIKQLTVGGKRLKLTIWDTAGQE 73

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSK-WIDEVRT-ERGSDVIIVLVGNKTDLV 127
           RFR+L  SY R++   ++VYDV  R++F N S  W  EV       D + +LVGNK D  
Sbjct: 74  RFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRE 133

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            +R VS EEG A ++E   +F+E SAK   N++  F ++A
Sbjct: 134 SERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELA 173

Length = 211

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

 Score =  116 bits (291), Expect = 1e-32
 Identities = 58/157 (36%), Positives = 99/157 (63%), Gaps = 1/157 (0%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ +G + VGKTS++ RF  D F    ++T+G+DF  KT+ L  + +RLQ+WDTAGQER
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           F S+  +Y R +   ++VYD+  +++F +  KW+  +      D  ++LVGNK D    R
Sbjct: 62  FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR 121

Query: 131 QVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKI 166
           +++ ++GE  ++++  M F E SAK  FN+  +F K+
Sbjct: 122 EITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKL 158

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 202

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score =  115 bits (289), Expect = 1e-32
 Identities = 60/161 (37%), Positives = 94/161 (58%), Gaps = 3/161 (1%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ +GD SVGKT +I RF  D FD  Y+ATIG+DF  +   +      LQLWDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLVEK 129
           F+ +  +Y R +   ++V+D+    S  +T +W+ D ++    S V++ LVG K DL   
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSP 121

Query: 130 RQVSIEEGEA--KSRELNVMFIETSAKAGFNIKPLFRKIAA 168
            Q ++ E +A   +RE+   +   SA  G N++  F ++A+
Sbjct: 122 AQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRVAS 162

Rab34/Rab36 subfamily. 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 regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 170

>gnl|CDD|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score =  115 bits (289), Expect = 2e-32
 Identities = 63/163 (38%), Positives = 93/163 (57%), Gaps = 4/163 (2%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV LGD  VGKT++  +   + F  TY  TI  D   K + ++ +   L++ DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIE-DSYRKQVVVDGQPCMLEVLDTAGQEE 59

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW---IDEVRTERGSDVIIVLVGNKTDLV 127
           + +L   +IR+    ++VY + SR +F    ++   I  V+ E  +DV I++VGNK D V
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            +R+VS EEG A +R L   FIE SAK   N++  F  +  AL
Sbjct: 120 YEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRAL 162

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. Length = 190

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score =  114 bits (287), Expect = 4e-32
 Identities = 58/157 (36%), Positives = 88/157 (56%), Gaps = 1/157 (0%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K + +GD  VGK  I+        ++ Y   +GID+ + T+ L+ R V+LQLWDT+GQ R
Sbjct: 8   KFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGR 67

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           F ++  SY R +   ++VYD+ +R SF    +WI E+  E    V  +LVGN+  L  KR
Sbjct: 68  FCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEI-DEHAPGVPKILVGNRLHLAFKR 126

Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           QV+ E+ +A +    + F E S    FNI   F ++A
Sbjct: 127 QVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELA 163

The Rab40 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 dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 189

>gnl|CDD|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score =  111 bits (280), Expect = 2e-31
 Identities = 60/164 (36%), Positives = 91/164 (55%), Gaps = 5/164 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYD--KFDNTYQATIGIDFLSKTMYLED--RTVRLQLWDTA 66
           +   +GD +VGK++++  F  D   F   Y  T G D + KT+ + D   +V L ++D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 67  GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTD 125
           GQE F  ++ +     +V  VVYDV +  SF N S+WI+ VRT   G     VLVGNK D
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCD 121

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           L ++R+V   + +A ++   + F ETSAK G   +  F  +A A
Sbjct: 122 LTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLARA 165

RabL4 (Rab-like4) subfamily. 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. Length = 167

>gnl|CDD|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score =  111 bits (281), Expect = 3e-31
 Identities = 60/175 (34%), Positives = 94/175 (53%), Gaps = 19/175 (10%)

Query: 12  LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF 71
           LV +GD +VGKT ++  +  + F   Y  T+  +  S  + ++ + V L LWDTAGQE +
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTV-FENYSADVEVDGKPVELGLWDTAGQEDY 59

Query: 72  RSLIP-SYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDL--- 126
             L P SY  D+ V ++ + V S  SF N   KW  EV+     +V I+LVG K DL   
Sbjct: 60  DRLRPLSY-PDTDVFLICFSVDSPASFENVKEKWYPEVK-HFCPNVPIILVGTKLDLRND 117

Query: 127 -------VEKRQ--VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
                   +K+Q  V+ E+G+A ++ +  V ++E SA     ++ +F + I AAL
Sbjct: 118 KSTLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL 172

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms. Length = 174

>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score =  107 bits (269), Expect = 1e-29
 Identities = 57/160 (35%), Positives = 89/160 (55%), Gaps = 2/160 (1%)

Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
             YKLV +G   VGK+++  +F+   F   Y  TI  D  +K   ++ +  RL + DTAG
Sbjct: 1   PTYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEIDGQWARLDILDTAG 59

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDL 126
           QE F ++   Y+R     ++V+ V  R SF    K+  ++ R +   +  ++LVGNK DL
Sbjct: 60  QEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADL 119

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
             +RQVS EEG+  +R+L + +IETSAK   N+   F  +
Sbjct: 120 EHQRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDL 159

The M-Ras/R-Ras-like 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 aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score =  107 bits (269), Expect = 2e-29
 Identities = 59/175 (33%), Positives = 94/175 (53%), Gaps = 4/175 (2%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  LG +SVGK+S+  +F+   F  +Y  TI   F SK +  + +   L++ DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDE 61

Query: 71  FRSLIP-SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVE 128
           + S++P  Y       ++VY V SR+SF       D++    G + + IVLVGNK+DL  
Sbjct: 62  Y-SILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHM 120

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEE 183
           +RQVS EEG+  +      F+E+SAK   N++  F  +   +  +E      Q+ 
Sbjct: 121 ERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEIEKVENPLPPGQKS 175

Rheb (Ras Homolog Enriched in Brain) subfamily. 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 leads to cell growth and cell-cycle progression. 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. Length = 180

>gnl|CDD|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score =  106 bits (266), Expect = 3e-29
 Identities = 59/159 (37%), Positives = 91/159 (57%), Gaps = 2/159 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +YK+V LG   VGK+++  +F+   F   Y  TI  DF  K + ++     L++ DTAG 
Sbjct: 1   EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGT 59

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE-VRTERGSDVIIVLVGNKTDLV 127
           E+F S+   YI++    +VVY + ++Q+F +     D+ VR +    V I+LVGNK DL 
Sbjct: 60  EQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLE 119

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
            +R+VS  EG A + E    F+ETSAK+   +  LF +I
Sbjct: 120 SEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEI 158

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, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score =  107 bits (268), Expect = 7e-29
 Identities = 58/182 (31%), Positives = 94/182 (51%), Gaps = 13/182 (7%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           M  +  + ++KL+ +GD  VGKT+ + R +  +F+  Y  T+G++      Y     +  
Sbjct: 1   MQQMDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICF 60

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWI-DEVRTERGSDVIIVL 119
            +WDTAGQE+F  L   Y      A++++DV SR ++ N   W  D VR     ++ IVL
Sbjct: 61  NVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRV--CENIPIVL 118

Query: 120 VGNKTDLVEKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMET 175
           VGNK D V+ RQV     +A+     R+ N+ + + SAK+ +N +  F  +A  L     
Sbjct: 119 VGNKVD-VKDRQV-----KARQITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTNDPN 172

Query: 176 LS 177
           L 
Sbjct: 173 LV 174

Length = 215

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

 Score =  104 bits (262), Expect = 1e-28
 Identities = 47/164 (28%), Positives = 74/164 (45%), Gaps = 13/164 (7%)

Query: 13  VFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           V +G   VGK+S++   +  +     +    T   D       L+   V+L L DT G +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDV--YVKELDKGKVKLVLVDTPGLD 58

Query: 70  RF-----RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
            F       L    +R + + ++V D   R+S  +    I   R  R   + I+LVGNK 
Sbjct: 59  EFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLIL--RRLRKEGIPIILVGNKI 116

Query: 125 DLVEKRQVS-IEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           DL+E+R+V  +   E  ++ L V   E SAK G  +  LF K+ 
Sbjct: 117 DLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLI 160

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|206710 cd04139, RalA_RalB, Ral (Ras-like) family containing highly homologous RalA and RalB

 Score =  104 bits (261), Expect = 2e-28
 Identities = 52/155 (33%), Positives = 93/155 (60%), Gaps = 2/155 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V+L + DTAGQE
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQLNILDTAGQE 59

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
            + ++  +Y R     ++V+ +   +SF   +++ +++ R +   +V ++LVGNK DL +
Sbjct: 60  DYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLED 119

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           KRQVS+EE    + +  V ++ETSAK   N+  +F
Sbjct: 120 KRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVF 154

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 exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score =  100 bits (251), Expect = 6e-27
 Identities = 48/153 (31%), Positives = 81/153 (52%), Gaps = 7/153 (4%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  LG   VGK+++  RF+  +F   Y+  +     S+ + ++   V L++ DT GQ++
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLE-SLYSRQVTIDGEQVSLEIQDTPGQQQ 59

Query: 71  F--RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW---IDEVRTERGSDVIIVLVGNKTD 125
                 +   +R +   V+VY +  R SF   S+    I E++  R  ++ ++LVGNK D
Sbjct: 60  NEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKK-RDGEIPVILVGNKAD 118

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN 158
           L+  RQVS EEG+  + EL  +F E SA   + 
Sbjct: 119 LLHSRQVSTEEGQKLALELGCLFFEVSAAENYL 151

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 tumor suppressor activity. Length = 166

>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like

 Score =  100 bits (251), Expect = 1e-26
 Identities = 57/174 (32%), Positives = 82/174 (47%), Gaps = 23/174 (13%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED---RTVRLQLWDT 65
           K K+V +GD   GKT ++  +    F   Y  T+   F +    L+    + + L LWDT
Sbjct: 3   KVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV---FENYVTTLQVPNGKIIELALWDT 59

Query: 66  AGQERFRSLIP-SYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNK 123
           AGQE +  L P SY  D  V ++ Y V +  S  N   KW  EV         IVLVG K
Sbjct: 60  AGQEDYDRLRPLSY-PDVDVILICYSVDNPTSLDNVEDKWYPEV-NHFCPGTPIVLVGLK 117

Query: 124 TDLVEKRQ------------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFR 164
           TDL + +             V+ E+GE+ ++ +  V +IE SAK   N+  +F 
Sbjct: 118 TDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFD 171

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. Length = 197

>gnl|CDD|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score = 99.2 bits (247), Expect = 2e-26
 Identities = 56/159 (35%), Positives = 94/159 (59%), Gaps = 3/159 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YKLV LG   VGK+++  +F+   F + Y  TI  D   K + ++ +   L++ DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
           +F ++   YI++     +VY + ++QSF +     +++ R +   DV ++LVGNK DL +
Sbjct: 61  QFTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 129 KRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRKI 166
           +R VS EEG+  +R+  N  F+ETSAK+  N+  +F  +
Sbjct: 121 ERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDL 159

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. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score = 99.4 bits (248), Expect = 5e-26
 Identities = 55/158 (34%), Positives = 85/158 (53%), Gaps = 1/158 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           Y++V LGD  VGK+S+   F    ++++     G D   +T+ ++     L ++D   QE
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS-DVIIVLVGNKTDLVE 128
               L  S ++     V+VY V  R SF   S+   ++R  R + D+ I+LVGNK+DLV 
Sbjct: 61  DGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNKSDLVR 120

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
            R+VS++EG A +   +  FIETSA    N+  LF  I
Sbjct: 121 SREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGI 158

RGK subfamily. 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 Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 99.6 bits (248), Expect = 6e-26
 Identities = 66/231 (28%), Positives = 104/231 (45%), Gaps = 47/231 (20%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQE 69
           K+V LGD +VGKTS++ R+M  +F +T  +T+G  F     YL+      + +WDTAG+E
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRFKDT-VSTVGGAF-----YLKQWGPYNISIWDTAGRE 55

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE- 128
           +F  L   Y R ++  ++ YDV++ QS          +      D +  +VGNK DL E 
Sbjct: 56  QFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEE 115

Query: 129 ------------------KRQVSIEEGEAKSRELN--------------VMFIETSAKAG 156
                             +RQV++E+ +A  + +N               M  ETSAK G
Sbjct: 116 GALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTG 175

Query: 157 FNIKPLFRKI-AAALPGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGC 206
           +N+  LF  +    LP +    +        VNL +        +S+S  C
Sbjct: 176 YNVDELFEYLFNLVLPLILAQRAEANRTQGTVNLPNP------KRSKSKCC 220

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-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 220

>gnl|CDD|133375 cd04175, Rap1, Rap1 family GTPase consists of Rap1a and Rap1b isoforms

 Score = 97.2 bits (242), Expect = 1e-25
 Identities = 52/156 (33%), Positives = 91/156 (58%), Gaps = 2/156 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +YKLV LG   VGK+++  +F+   F   Y  TI  D   K + ++ +   L++ DTAG 
Sbjct: 1   EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDGQQCMLEILDTAGT 59

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLV 127
           E+F ++   Y+++    V+VY + ++ +F +     +++ R +   DV ++LVGNK DL 
Sbjct: 60  EQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE 119

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           ++R V  E+G+  +R+    F+ETSAKA  N+  +F
Sbjct: 120 DERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIF 155

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 nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. 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. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

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

 Score = 96.9 bits (241), Expect = 2e-25
 Identities = 47/154 (30%), Positives = 84/154 (54%), Gaps = 4/154 (2%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ LGD +VGK+ ++ RF+ D ++    +T  +         E +T+ +  WDTAGQER
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQER 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           F+++  SY   +   ++V+DV  + ++ N SKW +E+R  R  ++  ++V NK DL +  
Sbjct: 62  FQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDL-DPS 119

Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR 164
               +   A+   L + +   SA  G N+  LF+
Sbjct: 120 VTQKKFNFAEKHNLPLYY--VSAADGTNVVKLFQ 151

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 161

>gnl|CDD|206712 cd04141, Rit_Rin_Ric, Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric)

 Score = 96.1 bits (239), Expect = 4e-25
 Identities = 55/159 (34%), Positives = 83/159 (52%), Gaps = 2/159 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YK+V LG   VGK+++  +F+   F + +  TI  D       +++    L + DTAGQ 
Sbjct: 3   YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIE-DAYKTQARIDNEPALLDILDTAGQA 61

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
            F ++   Y+R     ++ Y V  R SF   S++ + + R     D+ +VLVGNK DL +
Sbjct: 62  EFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVLVGNKVDLEQ 121

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           +RQV+ EEG   +RE N  F ETSA   F I   F  + 
Sbjct: 122 QRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLV 160

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 signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

>gnl|CDD|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 95.3 bits (237), Expect = 9e-25
 Identities = 55/159 (34%), Positives = 89/159 (55%), Gaps = 2/159 (1%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  +YKLV +G   VGK+++  +F+ + F + Y  TI  D   K   +++ T  L + DT
Sbjct: 2   ASTEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIE-DSYRKQCVIDEETCLLDILDT 60

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AGQE + ++   Y+R     + VY + SR SF   + + +++ R +    V ++LVGNK 
Sbjct: 61  AGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKC 120

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL  +RQVS  EG+  ++   + F+ETSAK   N+   F
Sbjct: 121 DLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAF 159

Length = 189

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 96.4 bits (240), Expect = 1e-24
 Identities = 59/167 (35%), Positives = 90/167 (53%), Gaps = 17/167 (10%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD   GKT+ + R +  +F+  Y+ TIG++      +     +R   WDTAGQE
Sbjct: 14  FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQE 73

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVE 128
           +F  L   Y      A++++DV +R ++ N   W  ++   R  + I IVL GNK D V+
Sbjct: 74  KFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLC--RVCENIPIVLCGNKVD-VK 130

Query: 129 KRQVSIEEGEAKS----RELNVMFIETSAKAGFNI-KP---LFRKIA 167
            RQV     +AK     R+ N+ + E SAK+ +N  KP   L RK+A
Sbjct: 131 NRQV-----KAKQVTFHRKKNLQYYEISAKSNYNFEKPFLYLARKLA 172

Length = 219

>gnl|CDD|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score = 93.6 bits (233), Expect = 2e-24
 Identities = 51/156 (32%), Positives = 87/156 (55%), Gaps = 3/156 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTAGQ
Sbjct: 1   EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQ 59

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLV 127
           E + ++   Y+R     + V+ + SR+SF +   + +++ R +   DV +VLVGNK DL 
Sbjct: 60  EEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDL- 118

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
             R VS  +G+  ++   + +IETSAK    ++  F
Sbjct: 119 AARTVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAF 154

H-Ras/N-Ras/K-Ras subfamily. 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. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF 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 most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 92.7 bits (231), Expect = 6e-24
 Identities = 51/169 (30%), Positives = 89/169 (52%), Gaps = 5/169 (2%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     +R  +WDTAGQE
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +F  L   Y      A++++DV SR ++ N   W  ++      ++ IVL GNK D+ ++
Sbjct: 61  KFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDR 119

Query: 130 RQVSIEEGEAKS-RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLS 177
           +   ++  +    R+ N+ + E SAK+ +N +  F  +A  L G   L 
Sbjct: 120 K---VKPKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLGNPNLE 165

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 bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 92.5 bits (230), Expect = 1e-23
 Identities = 54/167 (32%), Positives = 83/167 (49%), Gaps = 16/167 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKTS+I  +  + +   Y  T   D  S  + ++ + VRLQL DTAGQ+ 
Sbjct: 2   KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPT-AFDNFSVVVLVDGKPVRLQLCDTAGQDE 60

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVE- 128
           F  L P    D+ V ++ + V +  SF N + KWI E+R        I+LVG + DL   
Sbjct: 61  FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRK-HNPKAPIILVGTQADLRTD 119

Query: 129 -----------KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
                      ++ VS    +A + ++    +IE SA    N+K +F
Sbjct: 120 VNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

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, 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. Length = 173

>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 91.4 bits (227), Expect = 2e-23
 Identities = 56/156 (35%), Positives = 89/156 (57%), Gaps = 3/156 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YK+V LG   VGK+++  +F+ + F  +Y  TI  D   K + ++ R   L++ DTAG E
Sbjct: 2   YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIE-DSYRKQVEIDGRQCDLEILDTAGTE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
           +F ++   YI+     ++VY V S  S     +  ++V R +   +V +VLVGNK DL +
Sbjct: 61  QFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLED 120

Query: 129 KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
            RQVS E+G + S++   V F ETSA+   N+  +F
Sbjct: 121 DRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVF 156

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 feature of most Ras proteins. Length = 168

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 90.8 bits (225), Expect = 7e-23
 Identities = 55/167 (32%), Positives = 88/167 (52%), Gaps = 13/167 (7%)

Query: 15  LGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL 74
           +GD   GKT+ + R +  +F+  Y AT+G++      +     +R  +WDTAGQE+F  L
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 75  IPSYIRDSSVAVVVYDVASRQSFLNTSKW-IDEVRTERGSDVIIVLVGNKTDLVEKRQVS 133
              Y      A++++DV +R ++ N   W  D VR     ++ IVL GNK D V+ R+V 
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-VKDRKV- 116

Query: 134 IEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
               +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 117 ----KAKSITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 159

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

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

 Score = 89.4 bits (222), Expect = 1e-22
 Identities = 42/160 (26%), Positives = 77/160 (48%), Gaps = 4/160 (2%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNT-YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
            K+V +GD +VGK++++ R + +K   T Y+     ++++  +  + +T +  L DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQ-SFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL 126
           E + ++   Y R    ++ V+D+            K   E+     S V I+LVGNK DL
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDL 121

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
            +  ++        ++      I  SA+ G NI   F+ +
Sbjct: 122 RD-AKLKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV 160

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|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 87.6 bits (217), Expect = 5e-22
 Identities = 51/160 (31%), Positives = 83/160 (51%), Gaps = 4/160 (2%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           Y++V  G   VGK+S++ RF+   F  +Y  TI  D   + +        LQ+ DT G  
Sbjct: 2   YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIE-DTYRQVISCSKSICTLQITDTTGSH 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD---VIIVLVGNKTDL 126
           +F ++    I      ++VY + S+QS        + +   +G++   + I+LVGNK D 
Sbjct: 61  QFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDE 120

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
              R+VS  EG A +R  N  F+ETSAK   N++ LF+++
Sbjct: 121 SPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQEL 160

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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 87.8 bits (218), Expect = 7e-22
 Identities = 39/165 (23%), Positives = 85/165 (51%), Gaps = 6/165 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  LGD  +GKTS++ +++  +FD  Y  T+G++F+ KT+ +    +   +WD  GQ  
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQRE 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL---- 126
           F +++P   +D+   + ++D+  + +  +  +W  + R    +  I +LVG K DL    
Sbjct: 62  FINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKT-AIPILVGTKYDLFADL 120

Query: 127 -VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
             E+++   ++    ++ +    I  S     N++ +F+ + A +
Sbjct: 121 PPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKFVLAKV 165

Spg1p. 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 further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 182

>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 87.2 bits (216), Expect = 1e-21
 Identities = 60/171 (35%), Positives = 88/171 (51%), Gaps = 18/171 (10%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V LGD + GKTS++  F    F   Y+ T+  +++   ++++   V L LWDTAGQE 
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYI-HDIFVDGLAVELSLWDTAGQEE 60

Query: 71  F---RSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL 126
           F   RSL  SY  D+ V ++ + V +  S  N  SKW+ E+R      V +VLV  K DL
Sbjct: 61  FDRLRSL--SY-ADTHVIMLCFSVDNPDSLENVESKWLAEIR-HHCPGVKLVLVALKCDL 116

Query: 127 VEKRQV--------SIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRKIAA 168
            E R          S EEG A ++ +N   ++E SAK    +   F + A 
Sbjct: 117 REPRNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAFTEAAR 167

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. Length = 185

>gnl|CDD|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 86.7 bits (215), Expect = 1e-21
 Identities = 53/167 (31%), Positives = 86/167 (51%), Gaps = 16/167 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV +GD + GKT ++  F  D+F   Y  T+  +++   + ++ + V L LWDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQED 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P    D+ V ++ + + S  S  N   KW  EV+     +V I+LVGNK DL   
Sbjct: 62  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 120

Query: 127 ---------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
                    +++  V  EEG A + ++    ++E SAK    ++ +F
Sbjct: 121 EHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVF 167

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 geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization (Ras-dva) family

 Score = 86.8 bits (215), Expect = 2e-21
 Identities = 51/166 (30%), Positives = 87/166 (52%), Gaps = 5/166 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +LVF+G   VGKT++I RF+YD F+  ++ T+  +  SK   +    V + + DT+G   
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYS 59

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVEK 129
           F ++    I++     +VY V   +SF    +  +E+   +    V IV+VGNK D + +
Sbjct: 60  FPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLAE 119

Query: 130 RQVSIEEGEAKSR-ELNVMFIETSAKAGFNIKPLFRKI--AAALPG 172
           RQV   +  +    + N  F+E SAK   N+  +F+++   A LP 
Sbjct: 120 RQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELLQQANLPS 165

Ras-dva subfamily. 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. Length = 197

>gnl|CDD|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 85.9 bits (213), Expect = 2e-21
 Identities = 40/160 (25%), Positives = 71/160 (44%), Gaps = 6/160 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR-TVRLQLWDTAGQE 69
           KL+ +G   VGKTS+  + + +KFD    +T GI+     +   +R  +RL +WD  GQE
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQE 62

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSK--WIDEVRTERGSDVIIVLVGNKTDLV 127
            + +    ++   S+ ++V+D   R     +    W+ +++   G    ++LVG   D  
Sbjct: 63  IYHATHQFFLTSRSLYLLVFD--LRTGDEVSRVPYWLRQIKA-FGGVSPVILVGTHIDES 119

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
               +  +    K   +       S K G  I  L + IA
Sbjct: 120 CDEDILKKALNKKFPAIINDIHFVSCKNGKGIAELKKAIA 159

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

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

 Score = 81.7 bits (202), Expect = 3e-20
 Identities = 29/117 (24%), Positives = 59/117 (50%), Gaps = 4/117 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD+  GK+S++++ +  +F        G      T+ ++  T  L +WD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSF---LNTSKWIDEVRTERGSDVIIVLVGNKT 124
            +     +++ +   ++VYD+  R+S         W+  +R + G  + ++LVGNK 
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLR-KLGGKIPVILVGNKL 116

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis. Length = 116

>gnl|CDD|206663 cd01871, Rac1_like, Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3

 Score = 82.2 bits (203), Expect = 8e-20
 Identities = 53/167 (31%), Positives = 83/167 (49%), Gaps = 16/167 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTD---- 125
           +  L P     + V ++ + + S  SF N   KW  EVR     +  I+LVG K D    
Sbjct: 62  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 120

Query: 126 ------LVEKRQ--VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
                 L EK+   ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 121 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 167

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 nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. 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. Length = 174

>gnl|CDD|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 81.0 bits (200), Expect = 3e-19
 Identities = 49/167 (29%), Positives = 87/167 (52%), Gaps = 14/167 (8%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + KLV +GD + GKTS++  F   +F   Y  T+  ++++    ++ + V+L LWDTAGQ
Sbjct: 1   RRKLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTD-CRVDGKPVQLALWDTAGQ 59

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLV 127
           E +  L P     + V ++ + + +  S  N  +KWI+EVR     +V ++LVG K DL 
Sbjct: 60  EEYERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYCP-NVPVILVGLKKDLR 118

Query: 128 EK----------RQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           ++            V I++ +  +R +    ++E SA  G  +  +F
Sbjct: 119 QEAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVF 165

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). Length = 190

>gnl|CDD|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 79.5 bits (196), Expect = 9e-19
 Identities = 55/165 (33%), Positives = 86/165 (52%), Gaps = 14/165 (8%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++  TV L LWDTAGQE 
Sbjct: 3   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTV-FDNFSANVVVDGNTVNLGLWDTAGQED 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P   R + V ++ + + S+ S+ N   KWI E+R      V IVLVG K DL + 
Sbjct: 62  YNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELR-HYAPGVPIVLVGTKLDLRDD 120

Query: 130 RQ----------VSIEEGEAKSRELNV-MFIETSAKAGFNIKPLF 163
           +Q          ++  +GE   +++    +IE S+K   N+K +F
Sbjct: 121 KQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVF 165

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, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). 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. Length = 173

>gnl|CDD|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 79.8 bits (197), Expect = 2e-18
 Identities = 51/174 (29%), Positives = 86/174 (49%), Gaps = 13/174 (7%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           Y++V LG   VGKT+I++RF+  +F+  Y  TI  DF  K   +     +L + DT+G  
Sbjct: 1   YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNH 59

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSF---------LNTSKWIDEVRTERGSDVIIVLV 120
            F ++    I    V ++V+ + +R+SF         +  +K   + +T+    + +V+ 
Sbjct: 60  PFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVIC 119

Query: 121 GNKTDLVEKRQVSIEEGEA-KSRELNVMFIETSAKAGFNIKPLFRKIA--AALP 171
           GNK D    R+V  +E E     + N  + E SAK   N+  +FR +   A LP
Sbjct: 120 GNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAKLP 173

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 levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. 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. Length = 247

>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 73.6 bits (181), Expect = 1e-16
 Identities = 46/169 (27%), Positives = 86/169 (50%), Gaps = 17/169 (10%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD   GKT+++  F  D F   Y  T+  +  + +  ++ + + L LWDT+G   
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTV-FENYTASFEVDKQRIELSLWDTSGSPY 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTD---- 125
           + ++ P    DS   ++ +D++  ++  +   KW  EVR E   +  ++LVG K+D    
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVR-EFCPNTPVLLVGCKSDLRTD 120

Query: 126 ------LVEKRQ--VSIEEGEAKSRELN-VMFIETSAKAG-FNIKPLFR 164
                 L  KRQ  VS E+G   ++++    ++E SAK    +++ +F 
Sbjct: 121 LSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVFE 169

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. Length = 176

>gnl|CDD|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 73.9 bits (181), Expect = 2e-16
 Identities = 59/177 (33%), Positives = 93/177 (52%), Gaps = 22/177 (12%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE- 69
           K V +GD +VGKT ++  +  + F   Y  T+  D  S    ++ RTV L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTV-FDNYSAQTAVDGRTVSLNLWDTAGQEE 63

Query: 70  --RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTD- 125
             R R+L  SY + ++V ++ + +AS  S+ N   KW  EV      +V I+LVG K D 
Sbjct: 64  YDRLRTL--SYPQ-TNVFIICFSIASPSSYENVRHKWHPEV-CHHCPNVPILLVGTKKDL 119

Query: 126 ---------LVEKRQVSI--EEGEAKSRELN-VMFIETSAKAGFNIKPLFRKIAAAL 170
                    L E+ Q  I  ++G A +++++ V ++E SA     +K +F +   A+
Sbjct: 120 RNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAV 176

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-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. Length = 191

>gnl|CDD|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 71.8 bits (176), Expect = 7e-16
 Identities = 57/175 (32%), Positives = 88/175 (50%), Gaps = 17/175 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P     + V +V + V S  SF N   KW+ E+ T        +LVG + DL   
Sbjct: 62  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 120

Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
              +EK      + ++ E GE  +R+L  V ++E SA     +K +F + I AAL
Sbjct: 121 PSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 175

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 addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. 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. Length = 175

>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 66.8 bits (164), Expect = 3e-14
 Identities = 35/160 (21%), Positives = 65/160 (40%), Gaps = 9/160 (5%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ LG    GKT+I+ +    +   T   TIG  F  +T  +E + V+  +WD  GQ++
Sbjct: 1   RILMLGLDGAGKTTILYKLKLGEVVTT-IPTIG--FNVET--VEYKNVKFTVWDVGGQDK 55

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVEK 129
            R L   Y  ++   + V D + R+        + ++   E      ++++ NK DL   
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGA 115

Query: 130 RQVS-IEE--GEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
              S + E  G    +         SA  G  +      +
Sbjct: 116 LTESELIELLGLESIKGRRWHIQPCSAVTGDGLDEGLDWL 155

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. 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. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 66.5 bits (163), Expect = 7e-14
 Identities = 37/165 (22%), Positives = 70/165 (42%), Gaps = 13/165 (7%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ LG  + GKT+I+ +    +   T   TIG  F  +T  +  + V+  +WD  GQ
Sbjct: 14  EMRILILGLDNAGKTTILYKLKLGEIVTT-IPTIG--FNVET--VTYKNVKFTVWDVGGQ 68

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLV 127
           E  R L  +Y  ++   + V D A R       + +  +   E  +D  ++++ NK DL 
Sbjct: 69  ESLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLP 128

Query: 128 E-----KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
                 + +  +   E K R   +     SA  G  +      ++
Sbjct: 129 GAMSEAEIRELLGLHELKDRPWEI--QGCSAVTGEGLDEGLDWLS 171

Pfam combines a number of different Prosite families together. Length = 174

>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 65.3 bits (159), Expect = 3e-13
 Identities = 53/181 (29%), Positives = 78/181 (43%), Gaps = 36/181 (19%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD----- 64
            ++  LG   VGKT+I+ +F+  +F   Y  T         + L  R   L + D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 65  ----TAGQE----RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTS---KWIDEVRTERGS 113
               TAGQE    RFR L     R+S   ++VYD+ S  SF       + I E R     
Sbjct: 61  RYPGTAGQEWMDPRFRGL-----RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNK 115

Query: 114 DVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVM--------FIETSAKAGFNIKPLFRK 165
           +  IV+VGNK D    R        A    L+V+        ++E SAK  ++I  LF++
Sbjct: 116 EPPIVVVGNKRDQQRHRF-------APRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKE 168

Query: 166 I 166
           +
Sbjct: 169 L 169

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. Length = 198

>gnl|CDD|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 64.3 bits (156), Expect = 5e-13
 Identities = 44/167 (26%), Positives = 86/167 (51%), Gaps = 16/167 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  D F   Y  T+  D  + ++ +  +   L L+DTAGQE 
Sbjct: 2   KCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQED 60

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P     + V ++ + V +  SF N   +W+ E++ E   +V  +L+G + DL   
Sbjct: 61  YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELK-EYAPNVPYLLIGTQIDLRDD 119

Query: 127 ---------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
                    ++++ +++E+G+  ++E+    ++E SA     +K +F
Sbjct: 120 PKTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVF 166

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 interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. 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. Length = 174

>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal

 Score = 62.7 bits (153), Expect = 2e-12
 Identities = 45/164 (27%), Positives = 79/164 (48%), Gaps = 20/164 (12%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKF-DNTY----QATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++V +GD+ VGK+S+I   + ++F +N      + TI  D        E     +   DT
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVTP-----ERVPTTIV--DT 56

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           + + + R+ + + IR ++V  +VY V    +     +KW+  +R      V I+LVGNK+
Sbjct: 57  SSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGV-KVPIILVGNKS 115

Query: 125 DLVEKRQVSIEEGE-----AKSRELNVMFIETSAKAGFNIKPLF 163
           DL +    +  E E      + RE+    +E SAK   N+  +F
Sbjct: 116 DLRDGSSQAGLEEEMLPIMNEFREIET-CVECSAKTLINVSEVF 158

Miro1 subfamily. 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. Length = 168

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 63.2 bits (153), Expect = 3e-12
 Identities = 47/183 (25%), Positives = 89/183 (48%), Gaps = 17/183 (9%)

Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
            P   + + KLV +GD   GKT+++     D +  TY  T+  ++ +  +  E++ V L 
Sbjct: 6   NPQPLVVRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 64

Query: 62  LWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLV 120
           LWDT+G   + ++ P    DS   ++ +D++  + F +   KW  E+  +      I+L+
Sbjct: 65  LWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEI-LDYCPSTRILLI 123

Query: 121 GNKTDL------------VEKRQVSIEEGEAKSRELNV-MFIETSA-KAGFNIKPLFRKI 166
           G KTDL             ++  +S E+G A +++L    ++E SA  +  +I  +FR  
Sbjct: 124 GCKTDLRTDLSTLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSAFTSEKSIHSIFRTA 183

Query: 167 AAA 169
           +  
Sbjct: 184 SLL 186

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. Length = 232

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 58.5 bits (141), Expect = 7e-11
 Identities = 43/164 (26%), Positives = 83/164 (50%), Gaps = 16/164 (9%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K K+V +GD   GKT+++  F  D F   Y  T+  ++ + +  ++ + + L LWDT+G 
Sbjct: 5   KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGS 63

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL- 126
             + ++ P    DS   ++ +D++  ++  +   KW  E++ E   +  ++LVG K+DL 
Sbjct: 64  PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSDLR 122

Query: 127 ------VE-----KRQVSIEEGEAKSRELNVM-FIETSAKAGFN 158
                 VE     +  VS ++G   ++++    +IE SA    N
Sbjct: 123 TDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 166

Rnd3/RhoE/Rho8 subfamily. 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 junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. 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. Length = 182

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 56.2 bits (135), Expect = 7e-10
 Identities = 45/163 (27%), Positives = 82/163 (50%), Gaps = 18/163 (11%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD   GKT+++  F  D +  +Y  T+  ++ + +  ++   + L +WDT+G   
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENY-TASFEIDKHRIELNMWDTSGSSY 61

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLN--TSKWIDEVRTERGSDVIIVLVGNK----T 124
           + ++ P    DS   ++ +D+ SR   L+    KW  E + E   +  +VLVG K    T
Sbjct: 62  YDNVRPLAYPDSDAVLICFDI-SRPETLDSVLKKWQGETQ-EFCPNAKLVLVGCKLDMRT 119

Query: 125 DLVEKRQ--------VSIEEGEAKSRELN-VMFIETSAKAGFN 158
           DL   R+        V+ E+G   +R+L  V ++E S++   N
Sbjct: 120 DLSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSEN 162

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 spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. 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. Length = 221

>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 54.6 bits (131), Expect = 2e-09
 Identities = 54/193 (27%), Positives = 76/193 (39%), Gaps = 46/193 (23%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATI-------GID-FLSKTMYLE------- 54
            K V +GD +VGKT +I     +K    YQ           ID +      LE       
Sbjct: 3   IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVD 62

Query: 55  DRTVRLQLWDTAG----QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSK-WIDEVRT 109
             +V L+LWDT G      RF     +Y R S V ++ + +AS  S  N    W  E+R 
Sbjct: 63  GVSVSLRLWDTFGDHDKDRRF-----AYGR-SDVVLLCFSIASPNSLRNVKTMWYPEIR- 115

Query: 110 ERGSDVIIVLVGNKTDL-------------------VEKRQVSIEEGEAKSRELNVMFIE 150
                V ++LVG K DL                        +  E G A ++EL + + E
Sbjct: 116 HFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYE 175

Query: 151 TSAKAGFNIKPLF 163
           TS    F +K +F
Sbjct: 176 TSVVTQFGVKDVF 188

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. Length = 195

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 50.2 bits (120), Expect = 6e-08
 Identities = 37/126 (29%), Positives = 61/126 (48%), Gaps = 21/126 (16%)

Query: 12  LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL---EDRTVRLQLWDTAGQ 68
           +V LG  S GKT+++ R  +++F NT   T G  F ++ + +     + V    WD  GQ
Sbjct: 6   IVMLGLDSAGKTTVLYRLKFNEFVNTV-PTKG--FNTEKIKVSLGNAKGVTFHFWDVGGQ 62

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE-----RGSD---VIIVLV 120
           E+ R L  SY R +   V V D           + ++E +TE     + S+   V ++++
Sbjct: 63  EKLRPLWKSYTRCTDGIVFVVDSVD-------VERMEEAKTELHKITKFSENQGVPVLVL 115

Query: 121 GNKTDL 126
            NK DL
Sbjct: 116 ANKQDL 121

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. Length = 183

>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 48.9 bits (117), Expect = 1e-07
 Identities = 48/159 (30%), Positives = 66/159 (41%), Gaps = 28/159 (17%)

Query: 15  LGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL 74
           +G Q+ GKT+++      +F      T+G +    T       V +++WD  GQ RFRS+
Sbjct: 5   VGLQNSGKTTLVNVIASGQFSEDTIPTVGFNMRKVTK----GNVTIKVWDLGGQPRFRSM 60

Query: 75  IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVII--------VLV-GNKTD 125
              Y R  +  V V D A R+          EV      D++         +LV GNK D
Sbjct: 61  WERYCRGVNAIVYVVDAADREKL--------EVAKNELHDLLEKPSLEGIPLLVLGNKND 112

Query: 126 LVEKRQVS--IEEGEAKS---RELNVMFIETSAKAGFNI 159
           L     V   IE+   KS   RE  V     SAK   NI
Sbjct: 113 LPGALSVDELIEQMNLKSITDRE--VSCYSISAKEKTNI 149

Arl10-like subfamily. 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. Length = 159

>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 48.6 bits (116), Expect = 2e-07
 Identities = 31/117 (26%), Positives = 60/117 (51%), Gaps = 5/117 (4%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ LG  S GK++++ +  + +   T   T+G  F  + + LE + + L +WD  GQE+
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAELVTTI-PTVG--FNVEMLQLE-KHLSLTVWDVGGQEK 56

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDL 126
            R++   Y+ ++   V V D +       + K +  + + E    V +VL+ NK DL
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDL 113

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 high-risk familial breast cancer. Length = 160

>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases

 Score = 47.7 bits (114), Expect = 4e-07
 Identities = 25/90 (27%), Positives = 46/90 (51%), Gaps = 5/90 (5%)

Query: 8  AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           +YK++ +G  + GKT+I+ +F+  +  +T   TIG    S    +  + +R  +WD  G
Sbjct: 14 KEYKVIIVGLDNAGKTTILYQFLLGEVVHT-SPTIG----SNVEEIVYKNIRFLMWDIGG 68

Query: 68 QERFRSLIPSYIRDSSVAVVVYDVASRQSF 97
          QE  RS   +Y  ++   ++V D   R+  
Sbjct: 69 QESLRSSWNTYYTNTDAVILVIDSTDRERL 98

Arl5/Arl8 subfamily. 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. Length = 174

>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score = 47.7 bits (114), Expect = 5e-07
 Identities = 33/127 (25%), Positives = 58/127 (45%), Gaps = 8/127 (6%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+VFLG  + GKT+++     D+    +  T+       +  L    V+   +D  G E+
Sbjct: 21  KIVFLGLDNAGKTTLLHMLKDDRLA-QHVPTLH----PTSEELTIGNVKFTTFDLGGHEQ 75

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVEK 129
            R +   Y  +    V + D A  + F  + + +D +   E  ++V I+++GNK D    
Sbjct: 76  ARRVWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLNDEELANVPILILGNKIDK--P 133

Query: 130 RQVSIEE 136
             VS EE
Sbjct: 134 GAVSEEE 140

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. Length = 191

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 47.3 bits (112), Expect = 6e-07
 Identities = 33/127 (25%), Positives = 61/127 (48%), Gaps = 8/127 (6%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           ++V LG    GKT+I+ +   D+F    Q    I F  +T  +E + ++  +WD  G+ +
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEF---MQPIPTIGFNVET--VEYKNLKFTIWDVGGKHK 55

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEK 129
            R L   Y  ++   V V D + R         + ++ TE+   D ++++  NK D+   
Sbjct: 56  LRPLWKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDV--A 113

Query: 130 RQVSIEE 136
             +S+EE
Sbjct: 114 GALSVEE 120

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 membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

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

 Score = 46.8 bits (112), Expect = 3e-06
 Identities = 44/185 (23%), Positives = 72/185 (38%), Gaps = 41/185 (22%)

Query: 11  KLVFLGDQSVGKTSIITRFM-------YDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 63
           K+  +G  +VGK+S+I   +        D       A    D +      + R   L   
Sbjct: 180 KIAIIGRPNVGKSSLINAILGEERVIVSD------IAGTTRDSIDIEFERDGRKYVL--I 231

Query: 64  DTAG----------QERFRSL--IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER 111
           DTAG           E++     + + I  + V ++V D    +        I  +  E 
Sbjct: 232 DTAGIRRKGKITESVEKYSVARTLKA-IERADVVLLVIDA--TEGISEQDLRIAGLIEEA 288

Query: 112 GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-------NVMFIETSAKAGFNIKPLFR 164
           G  ++IV+  NK DLVE+ + ++EE + K R          ++FI  SA  G  +  LF 
Sbjct: 289 GRGIVIVV--NKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFI--SALTGQGLDKLFE 344

Query: 165 KIAAA 169
            I   
Sbjct: 345 AIKEI 349

Length = 444

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 39/170 (22%), Positives = 57/170 (33%), Gaps = 21/170 (12%)

Query: 13  VFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAG- 67
              G  +VGK+S++   +             T       K   L     V L   DT G 
Sbjct: 1   AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPV--RKEWELLPLGPVVLI--DTPGL 56

Query: 68  -----QERFRS-LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVG 121
                  R R          + + ++V D       L   +   ++   R     ++LV 
Sbjct: 57  DEEGGLGRERVEEARQVADRADLVLLVVDSD-----LTPVEEEAKLGLLRERGKPVLLVL 111

Query: 122 NKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRKIAAAL 170
           NK DLV + +      E K   L  +  I  SA  G  I  L +KIA  L
Sbjct: 112 NKIDLVPESEEEELLRERKLELLPDLPVIAVSALPGEGIDELRKKIAELL 161

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|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 32/124 (25%), Positives = 54/124 (43%), Gaps = 20/124 (16%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ LG  + GKT+I+ +    +   T   T+G +  + T     + V+  +WD  GQ++
Sbjct: 11  RILMLGLDAAGKTTILYKLKLGQSVTTI-PTVGFNVETVTY----KNVKFNVWDVGGQDK 65

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLVGN 122
            R L   Y   +   + V D A R         IDE R E           D ++++  N
Sbjct: 66  IRPLWRHYYTGTQGLIFVVDSADRDR-------IDEARQELHRIINDREMRDALLLVFAN 118

Query: 123 KTDL 126
           K DL
Sbjct: 119 KQDL 122

Arf6 subfamily. 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 to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection. Length = 168

>gnl|CDD|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 43.0 bits (102), Expect = 2e-05
 Identities = 41/177 (23%), Positives = 73/177 (41%), Gaps = 19/177 (10%)

Query: 15  LGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS 73
           LG +  GK++++  F+   F  N Y  TI   +   T+ +  +   L L +    E    
Sbjct: 10  LGAKGSGKSALLQAFLGRSFSQNAYSPTIKPRYAVNTVEVPGQEKYLILREVGEDEEAIL 69

Query: 74  LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRT--ERGSDVIIVLVGNKTDLVEKRQ 131
           L  + +    VA +VYD +   SF     +  EV        ++  + V  K DL E++Q
Sbjct: 70  LNDAELAACDVACLVYDSSDPNSF----SYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQ 125

Query: 132 VSIEEGEAKSRELNVMFIET----SAKAGFNIKPLFRKI--AAALPGM---ETLSST 179
            +  + +   R+   + +      S++ G +   LF K+  AA  P +   E  S  
Sbjct: 126 RAEVQPDEFCRK---LGLPPPLHFSSRLGDSSNELFTKLATAAQYPHLSIPELESGK 179

Miro2 subfamily. 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. Length = 180

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 41.9 bits (99), Expect = 4e-05
 Identities = 28/109 (25%), Positives = 46/109 (42%), Gaps = 6/109 (5%)

Query: 58  VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVI 116
            RL  WD  GQE  RSL   Y  +S   + V D   R+ F  +    ++V   E    V 
Sbjct: 51  ARLMFWDLGGQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVP 110

Query: 117 IVLVGNKTDL-----VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK 160
           ++++ NK DL     V + +   ++  A     + +    SA  G  ++
Sbjct: 111 LLVLANKQDLPDALSVAEIKEVFDDCIALIGRRDCLVQPVSALEGEGVE 159

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. Length = 168

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

 Score = 42.1 bits (100), Expect = 4e-05
 Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 3/63 (4%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E G  V++ L  N  D  EK+ + I+  +  S  L V  + TSA+ G  I  L   I   
Sbjct: 103 ELGIPVVVAL--NMMDEAEKKGIKIDI-KKLSELLGVPVVPTSARKGEGIDELKDAIIEV 159

Query: 170 LPG 172
             G
Sbjct: 160 AEG 162

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

 Score = 40.9 bits (97), Expect = 9e-05
 Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 3/63 (4%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E G  V++ L  N  D  EKR + I+  +  S  L V  + TSA+ G  I  L   IA  
Sbjct: 100 ELGLPVVVAL--NMIDEAEKRGIKIDL-DKLSELLGVPVVPTSARKGEGIDELLDAIAKL 156

Query: 170 LPG 172
              
Sbjct: 157 AES 159

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|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor

 Score = 41.1 bits (96), Expect = 9e-05
 Identities = 30/126 (23%), Positives = 54/126 (42%), Gaps = 20/126 (15%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ +G  + GKT+I+ +    +   T   TIG +  +    +  + +   +WD  GQ++
Sbjct: 15  RILMVGLDAAGKTTILYKLKLGESVTTI-PTIGFNVET----VTYKNISFTVWDVGGQDK 69

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLVGN 122
            R L   Y  ++   + V D   R         IDE R E           D +I++  N
Sbjct: 70  IRPLWRHYYTNTQGLIFVVDSNDRDR-------IDEAREELHRMLNEDELRDAVILVFAN 122

Query: 123 KTDLVE 128
           K DL +
Sbjct: 123 KQDLPD 128

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). Length = 175

>gnl|CDD|206682 cd01895, EngA2, EngA2 GTPase contains the second domain of EngA

 Score = 40.5 bits (96), Expect = 1e-04
 Identities = 33/130 (25%), Positives = 53/130 (40%), Gaps = 26/130 (20%)

Query: 59  RLQLWDTAGQER---------FRSLIPSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEV 107
           +  L DTAG  +           S++ +   I  + V ++V D  + +        I  +
Sbjct: 51  KYTLIDTAGIRKKGKVTEGIEKYSVLRTLKAIERADVVLLVLD--ASEGITEQDLRIAGL 108

Query: 108 RTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMF--------IETSAKAGFNI 159
             E G  +IIV+  NK DLVEK + +++E E   +EL            +  SA  G  +
Sbjct: 109 ILEEGKALIIVV--NKWDLVEKDEKTMKEFE---KELRRKLPFLDYAPIVFISALTGQGV 163

Query: 160 KPLFRKIAAA 169
             LF  I   
Sbjct: 164 DKLFDAIKEV 173

This EngA2 subfamily 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. Length = 174

>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase HydF

 Score = 41.3 bits (98), Expect = 1e-04
 Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 7/70 (10%)

Query: 102 KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP 161
           + I+E++ ER    I+V+  NK DL E       E E   ++  +  I  SA  G  I  
Sbjct: 105 ELIEELK-ERKIPYIVVI--NKIDLGE----ESAELEKLEKKFGLPPIFVSALTGEGIDE 157

Query: 162 LFRKIAAALP 171
           L   I   LP
Sbjct: 158 LKEAIIELLP 167

This model describes the family of the [Fe] hydrogenase maturation protein HypF as characterized in Chlamydomonas reinhardtii and found, in an operon with radical SAM proteins HydE and HydG, in numerous bacteria. It has GTPase activity, can bind an 4Fe-4S cluster, and is essential for hydrogenase activity [Protein fate, Protein modification and repair]. Length = 391

>gnl|CDD|206727 cd04164, trmE, trmE is a tRNA modification GTPase

 Score = 39.8 bits (94), Expect = 2e-04
 Identities = 26/125 (20%), Positives = 43/125 (34%), Gaps = 29/125 (23%)

Query: 58  VRLQLWDTAG------------QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWID 105
           + ++L DTAG             ER R  I     ++ + ++V D +            D
Sbjct: 51  IPVRLIDTAGLRETEDEIEKIGIERAREAI----EEADLVLLVVDASEGLDEE------D 100

Query: 106 EVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK 165
               E  +   +++V NK+DL+   +   E             I  SAK G  I  L   
Sbjct: 101 LEILELPAKKPVIVVLNKSDLLSDAEGISELNGKP-------IIAISAKTGEGIDELKEA 153

Query: 166 IAAAL 170
           +    
Sbjct: 154 LLELA 158

TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. 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. Length = 159

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 40.1 bits (94), Expect = 2e-04
 Identities = 38/158 (24%), Positives = 63/158 (39%), Gaps = 18/158 (11%)

Query: 11  KLVFLGDQSVGKTSIITRFMY------------DKFDNTYQATIGIDFLSKTMYLEDRTV 58
           K+V +G    GKT+ +                          T+ +DF S  +   + T 
Sbjct: 12  KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELD--EDTG 69

Query: 59  RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIV 118
            + L+ T GQERF+ +     R +  A+V+ D +SR    +  + ID + +     V++ 
Sbjct: 70  -VHLFGTPGQERFKFMWEILSRGAVGAIVLVD-SSRPITFHAEEIIDFLTSRNPIPVVVA 127

Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG 156
           +  NK DL +           K   L+V  IE  A  G
Sbjct: 128 I--NKQDLFDALPPEKIREALKLELLSVPVIEIDATEG 163

Length = 187

>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region

 Score = 39.1 bits (92), Expect = 6e-04
 Identities = 28/96 (29%), Positives = 45/96 (46%), Gaps = 17/96 (17%)

Query: 11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVR------LQLWD 64
          K++ +G +  GK+S+ +      F N Y        L  T+ +E   VR      L LWD
Sbjct: 1  KVLLMGLRGSGKSSMRSII----FSN-YSPR-DTLRLGATIDVEQSHVRFLGNLTLNLWD 54

Query: 65 TAGQERFRSLIPSYIRD---SSVAVVVY--DVASRQ 95
            GQ+ F     +  ++   S+V V++Y  DV SR+
Sbjct: 55 CPGQDDFMENYLTRQKEHIFSNVGVLIYVFDVESRE 90

GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. 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. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B. Length = 230

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

 Score = 38.9 bits (92), Expect = 0.001
 Identities = 35/145 (24%), Positives = 54/145 (37%), Gaps = 33/145 (22%)

Query: 58  VRLQLWDTAG------------QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWID 105
           + L+L DTAG             ER R  I     ++ + ++V D AS        + ++
Sbjct: 263 IPLRLIDTAGIRETDDEVEKIGIERSREAI----EEADLVLLVLD-ASEPLTEEDDEILE 317

Query: 106 EVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK 165
           E++     D  +++V NK DL  +  +  E G+          I  SAK G  I  L   
Sbjct: 318 ELK-----DKPVIVVLNKADLTGEIDLEEENGKP--------VIRISAKTGEGIDELREA 364

Query: 166 IAAALPGMETLSSTKQEEMVDVNLR 190
           I              QE +   N R
Sbjct: 365 IKEL---AFGGFGGNQEGVFLTNAR 386

Length = 449

>gnl|CDD|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 37.9 bits (88), Expect = 0.001
 Identities = 34/168 (20%), Positives = 73/168 (43%), Gaps = 25/168 (14%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQA---TIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           KL  +G+   GK++++ R++      +Y       G  F  K + ++ ++  L + D  G
Sbjct: 2   KLGIVGNLRSGKSALVHRYL----TGSYVQLESPEGGRF-KKEVLVDGQSHLLLIRDEGG 56

Query: 68  QE--RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKT 124
               +F   + + I        V+ +    SF    +   ++ + R  S++ ++LVG + 
Sbjct: 57  APDAQFAGWVDAVI-------FVFSLEDEASFQTVYRLYHQLSSYRNISEIPLILVGTQD 109

Query: 125 DLVEKRQVSIEEGEAKSREL-----NVMFIETSAKAGFNIKPLFRKIA 167
            +       I++  A  R+L        + ET A  G N++ +F++ A
Sbjct: 110 AISASNPRVIDDARA--RQLCADMKRCSYYETCATYGLNVERVFQEAA 155

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. GGAP has been shown to have high GTPase activity due to a direct intramolecular interaction between the N-terminal GTPase domain and the C-terminal ArfGAP domain. In human tissue, AGAP mRNA was detected in skeletal muscle, kidney, placenta, brain, heart, colon, and lung. Reduced expression levels were also observed in the spleen, liver, and small intestine. Length = 158

>gnl|CDD|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 38.0 bits (88), Expect = 0.001
 Identities = 29/123 (23%), Positives = 54/123 (43%), Gaps = 14/123 (11%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIG-------IDFLSKTMYLEDRTVRLQLW 63
           K++ LGD  VGK+S++     ++       T+G         +   T   E++T  ++LW
Sbjct: 2   KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTP--EEKTFYVELW 59

Query: 64  DTAGQ----ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVL 119
           D  G     E  +S    +    +  + V+D+ +++S  N  +W  E    R +    +L
Sbjct: 60  DVGGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEA-LNRDTFPAGLL 118

Query: 120 VGN 122
           V N
Sbjct: 119 VTN 121

RabL3 (Rab-like3) subfamily. 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. Length = 204

>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms the heterodimeric signal recognition particle (SRP)

 Score = 38.1 bits (89), Expect = 0.001
 Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 25/128 (19%)

Query: 13  VFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERF 71
           + LG    GKT++ T+    K  +T  +   I+    + Y    +  +L L D  G E+ 
Sbjct: 4   LLLGPSDSGKTALFTKLTTGKVRSTVTS---IEPNVASFYSNSSKGKKLTLVDVPGHEKL 60

Query: 72  RSLIPSYIRDSSVAVV-VYDVASRQS------------FLNTSKWIDEVRTERGSDVIIV 118
           R  +  Y++ S  A+V V D A+ Q               +  K  +++         I+
Sbjct: 61  RDKLLEYLKASLKAIVFVVDSATFQKNIRDVAEFLYDILTDLEKIKNKIP--------IL 112

Query: 119 LVGNKTDL 126
           +  NK DL
Sbjct: 113 IACNKQDL 120

Signal recognition particle receptor, beta subunit (SR-beta). 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 type of cancer. Length = 202

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

 Score = 38.1 bits (90), Expect = 0.002
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 5/58 (8%)

Query: 117 IVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIET---SAKAGFNIKPLFRKIAAALP 171
           ++LV NK DLV+ ++  +   E  S  ++  F E    SA  G N+  L   IA  LP
Sbjct: 116 VILVLNKIDLVKDKEELLPLLEELSELMD--FAEIVPISALKGDNVDELLDVIAKYLP 171

Length = 292

>gnl|CDD|206726 cd04163, Era, E

 Score = 37.1 bits (87), Expect = 0.002
 Identities = 27/100 (27%), Positives = 43/100 (43%), Gaps = 19/100 (19%)

Query: 79  IRDSSVAVVVYDVASRQSFLNTSKWIDE-----VRTERGSDVIIVLVGNKTDLVEKRQVS 133
           ++D  + + V D          S+WI E     +   + S   ++LV NK DLV+ ++  
Sbjct: 80  LKDVDLVLFVVDA---------SEWIGEGDEFILELLKKSKTPVILVLNKIDLVKDKED- 129

Query: 134 IEEGEAKSRELNVMFIET---SAKAGFNIKPLFRKIAAAL 170
           +     K +EL+  F E    SA  G N+  L   I   L
Sbjct: 130 LLPLLEKLKELHP-FAEIFPISALKGENVDELLEYIVEYL 168

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|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 37.5 bits (87), Expect = 0.003
 Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 18/90 (20%)

Query: 55  DRTVRLQLWDTAGQERF---RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER 111
           +R   ++LWD +G ER+   RSL  S I      + V+D++ R++  +  KW  EV    
Sbjct: 80  ERDFFVELWDVSGHERYKDCRSLFYSQING---VIFVHDLSQRRTKTSLQKWASEVAATG 136

Query: 112 ------------GSDVIIVLVGNKTDLVEK 129
                       G  V  +++GNK D+  K
Sbjct: 137 TFSAPLGSGGPGGLPVPYIVIGNKADIAPK 166

Length = 334

>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase

 Score = 36.5 bits (85), Expect = 0.003
 Identities = 33/119 (27%), Positives = 58/119 (48%), Gaps = 10/119 (8%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ LG  + GKT+I+ +F   +  +T   T+G  F  KT  LE    +L +WD  GQ+ 
Sbjct: 16  RILMLGLDNAGKTTILKKFN-GEDISTISPTLG--FNIKT--LEYNGYKLNIWDVGGQKS 70

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER---GSDVIIVLVGNKTDL 126
            RS   +Y   +   + V D + R    +  + + ++  E    G+ ++I    NK DL
Sbjct: 71  LRSYWRNYFESTDALIWVVDSSDRARLEDCKRELQKLLVEERLAGATLLIFA--NKQDL 127

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. Length = 173

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 36.6 bits (85), Expect = 0.003
 Identities = 30/119 (25%), Positives = 57/119 (47%), Gaps = 6/119 (5%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ LG  + GKT+I+ + +  +  +    T G +  +    ++    +L +WD  GQ +
Sbjct: 17  RILLLGLDNAGKTTILKQ-LASEDISHITPTQGFNIKN----VQADGFKLNVWDIGGQRK 71

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV-GNKTDLVE 128
            R    +Y  ++ V + V D A R+ F    + + E+  E     + VLV  NK DL+ 
Sbjct: 72  IRPYWRNYFENTDVLIYVIDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDLLT 130

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. Length = 174

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	208
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
PLN03108	210	Rab family protein; Provisional	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.98
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.98
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.98
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.98
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.98
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.98
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.98
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.98
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.97
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
PTZ00099	176	rab6; Provisional	99.96
PTZ00133	182	ADP-ribosylation factor; Provisional	99.96
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.96
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.96
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.96
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.95
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.95
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.94
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.94
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.94
PRK12299	335	obgE GTPase CgtA; Reviewed	99.94
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.94
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.94
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.94
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.94
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.93
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.93
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.93
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.93
COG1100	219	GTPase SAR1 and related small G proteins [General	99.92
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.92
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.92
PRK04213	201	GTP-binding protein; Provisional	99.92
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.92
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.92
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.92
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.92
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.92
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.92
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.91
PRK03003	472	GTP-binding protein Der; Reviewed	99.91
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.91
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.91
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.9
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.9
PRK15494	339	era GTPase Era; Provisional	99.9
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.9
PRK12297	424	obgE GTPase CgtA; Reviewed	99.9
PRK12296	500	obgE GTPase CgtA; Reviewed	99.9
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.89
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.89
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.89
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.89
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.89
cd00881	189	GTP_translation_factor GTP translation factor fami	99.89
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.89
KOG1673	205	consensus Ras GTPases [General function prediction	99.89
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.89
PRK12298	390	obgE GTPase CgtA; Reviewed	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.89
PRK11058	426	GTPase HflX; Provisional	99.89
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.88
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.88
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.88
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.88
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.88
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.88
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.87
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.87
PRK00089	292	era GTPase Era; Reviewed	99.87
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.87
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.87
PRK05306	787	infB translation initiation factor IF-2; Validated	99.86
COG1159	298	Era GTPase [General function prediction only]	99.86
CHL00189	742	infB translation initiation factor 2; Provisional	99.86
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.86
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.86
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.86
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.86
PRK00093	435	GTP-binding protein Der; Reviewed	99.86
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.86
PRK00093	435	GTP-binding protein Der; Reviewed	99.86
PRK05433	600	GTP-binding protein LepA; Provisional	99.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.85
COG1160	444	Predicted GTPases [General function prediction onl	99.85
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.85
COG1160	444	Predicted GTPases [General function prediction onl	99.84
PRK12317	425	elongation factor 1-alpha; Reviewed	99.83
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.83
COG2229	187	Predicted GTPase [General function prediction only	99.83
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.83
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.83
COG0486	454	ThdF Predicted GTPase [General function prediction	99.83
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.82
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.82
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.82
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.82
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.82
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.82
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.81
PRK10218	607	GTP-binding protein; Provisional	99.81
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.81
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.81
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.81
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.8
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.8
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.8
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.8
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.79
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.79
PRK04004	586	translation initiation factor IF-2; Validated	99.79
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.78
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.78
PRK12736	394	elongation factor Tu; Reviewed	99.78
COG0218	200	Predicted GTPase [General function prediction only	99.77
PRK12735	396	elongation factor Tu; Reviewed	99.77
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.77
COG1084	346	Predicted GTPase [General function prediction only	99.77
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.76
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.75
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.75
CHL00071	409	tufA elongation factor Tu	99.75
COG0536	369	Obg Predicted GTPase [General function prediction	99.74
COG2262	411	HflX GTPases [General function prediction only]	99.74
PLN00043	447	elongation factor 1-alpha; Provisional	99.73
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.73
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.72
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.72
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.72
PLN03126	478	Elongation factor Tu; Provisional	99.72
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.72
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.72
PRK00049	396	elongation factor Tu; Reviewed	99.71
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.71
PLN03127	447	Elongation factor Tu; Provisional	99.71
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.71
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.71
PTZ00141	446	elongation factor 1- alpha; Provisional	99.71
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.7
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.7
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.7
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.7
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.69
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.68
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.68
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.67
PRK13351	687	elongation factor G; Reviewed	99.67
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.67
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.67
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.66
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.66
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.66
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.65
KOG1145	683	consensus Mitochondrial translation initiation fac	99.65
COG1163	365	DRG Predicted GTPase [General function prediction	99.65
COG3596	296	Predicted GTPase [General function prediction only	99.65
KOG0090	238	consensus Signal recognition particle receptor, be	99.64
PRK09602	396	translation-associated GTPase; Reviewed	99.63
PRK12739	691	elongation factor G; Reviewed	99.63
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.62
PRK00007	693	elongation factor G; Reviewed	99.57
PRK09866	741	hypothetical protein; Provisional	99.56
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.54
PRK12740	668	elongation factor G; Reviewed	99.53
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.53
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.53
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.51
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.5
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.5
PTZ00258	390	GTP-binding protein; Provisional	99.49
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.49
PRK14845	1049	translation initiation factor IF-2; Provisional	99.48
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.47
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.46
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.45
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.45
PRK09601	364	GTP-binding protein YchF; Reviewed	99.44
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.44
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.44
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.43
PRK07560	731	elongation factor EF-2; Reviewed	99.43
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.42
PRK13768	253	GTPase; Provisional	99.41
PTZ00416	836	elongation factor 2; Provisional	99.41
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.39
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.39
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.36
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.36
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.35
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.34
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.34
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.32
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.32
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.3
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.29
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.29
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.29
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.29
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.27
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.26
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.26
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.24
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.23
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.22
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.2
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.19
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.18
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.17
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.15
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.15
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	99.13
KOG0410	410	consensus Predicted GTP binding protein [General f	99.12
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.09
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.07
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	99.05
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.03
KOG0460	449	consensus Mitochondrial translation elongation fac	99.0
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	99.0
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.99
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.99
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.97
KOG1143	591	consensus Predicted translation elongation factor	98.93
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.93
PRK12289	352	GTPase RsgA; Reviewed	98.93
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.92
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.9
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.9
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.89
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.88
PRK00098	298	GTPase RsgA; Reviewed	98.84
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.84
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.83
PRK12288	347	GTPase RsgA; Reviewed	98.83
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.82
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.8
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.79
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.76
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.76
KOG2486	320	consensus Predicted GTPase [General function predi	98.76
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.75
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.74
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.69
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.68
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.66
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.63
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.63
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.59
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.59
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.58
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.58
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.58
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.58
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.56
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.56
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.53
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.52
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.5
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.5
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.48
COG1161	322	Predicted GTPases [General function prediction onl	98.45
PRK10416	318	signal recognition particle-docking protein FtsY;	98.45
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.45
PRK12288	347	GTPase RsgA; Reviewed	98.45
KOG4273	418	consensus Uncharacterized conserved protein [Funct	98.41
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.4
COG1162	301	Predicted GTPases [General function prediction onl	98.39
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.39
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.39
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.37
cd03112	158	CobW_like The function of this protein family is u	98.34
PRK13796	365	GTPase YqeH; Provisional	98.33
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.32
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.31
PRK12289	352	GTPase RsgA; Reviewed	98.3
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.3
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.29
PRK01889	356	GTPase RsgA; Reviewed	98.27
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.23
PRK14974	336	cell division protein FtsY; Provisional	98.23
PRK13695	174	putative NTPase; Provisional	98.2
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.2
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.2
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.2
COG0523	323	Putative GTPases (G3E family) [General function pr	98.19
KOG0099	379	consensus G protein subunit Galphas, small G prote	98.17
PRK13796	365	GTPase YqeH; Provisional	98.16
COG1162	301	Predicted GTPases [General function prediction onl	98.16
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.15
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.11
KOG1534	273	consensus Putative transcription factor FET5 [Tran	98.09
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	98.09
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.09
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	98.08
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.07
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.06
PRK00098	298	GTPase RsgA; Reviewed	98.06
cd03110	179	Fer4_NifH_child This protein family's function is	98.06
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.03
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	98.01
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.01
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.99
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.98
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.95
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.92
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.92
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.89
COG3523	1188	IcmF Type VI protein secretion system component Va	97.88
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.86
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.82
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.79
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.78
cd03114	148	ArgK-like The function of this protein family is u	97.78
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.77
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.74
PRK10867	433	signal recognition particle protein; Provisional	97.72
TIGR00959	428	ffh signal recognition particle protein. This mode	97.71
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.69
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.68
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.65
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.64
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.64
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.61
KOG1533	290	consensus Predicted GTPase [General function predi	97.57
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.56
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.56
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.55
KOG2484	435	consensus GTPase [General function prediction only	97.53
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.49
PRK07261	171	topology modulation protein; Provisional	97.47
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.45
cd03111	106	CpaE_like This protein family consists of proteins	97.44
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.43
PRK08118	167	topology modulation protein; Reviewed	97.41
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.39
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.38
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.37
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.32
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.3
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.28
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.27
PRK14530	215	adenylate kinase; Provisional	97.24
PRK14738	206	gmk guanylate kinase; Provisional	97.23
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.23
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.23
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.18
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.18
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.17
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.16
PRK01889	356	GTPase RsgA; Reviewed	97.15
PRK06217	183	hypothetical protein; Validated	97.14
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.13
PRK03839	180	putative kinase; Provisional	97.12
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.11
PRK04195	482	replication factor C large subunit; Provisional	97.11
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.09
smart00382	148	AAA ATPases associated with a variety of cellular	97.08
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	97.07
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.04
PF00004	132	AAA: ATPase family associated with various cellula	97.04
PRK08233	182	hypothetical protein; Provisional	97.04
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.03
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.02
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.01
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.01
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.01
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	97.0
PRK05480	209	uridine/cytidine kinase; Provisional	97.0
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.0
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.98
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.96
cd02036	179	MinD Bacterial cell division requires the formatio	96.95
PRK14532	188	adenylate kinase; Provisional	96.94
PRK00625	173	shikimate kinase; Provisional	96.94
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.94
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.94
PRK10646	153	ADP-binding protein; Provisional	96.93
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.93
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.92
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.9
PRK14737	186	gmk guanylate kinase; Provisional	96.9
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.89
PRK02496	184	adk adenylate kinase; Provisional	96.89
PRK08727	233	hypothetical protein; Validated	96.88
PRK14531	183	adenylate kinase; Provisional	96.88
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.87
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.86
PRK13949	169	shikimate kinase; Provisional	96.86
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.86
PRK13851	344	type IV secretion system protein VirB11; Provision	96.85
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.85
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.84
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.84
PTZ00088	229	adenylate kinase 1; Provisional	96.83

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

Probab=100.00  E-value=2e-43  Score=245.82  Aligned_cols=172  Identities=42%  Similarity=0.696  Sum_probs=164.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      -.+.+||+|+|++|||||+|+.||..+.|.+.+..|+++++....+.++++.++++||||+|+++|+++...+++++|++
T Consensus         6 ~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGi   85 (205)
T KOG0084|consen    6 YDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGI   85 (205)
T ss_pred             cceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeE
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCe-EEEeecCCCCChHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFR  164 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~  164 (208)
                      |+|||+++.+||..+..|+.+++.+..+++|.++|+||+|+.+.+.++.++++.++.+++++ ++++||+++.++++.|.
T Consensus        86 i~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~  165 (205)
T KOG0084|consen   86 IFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFL  165 (205)
T ss_pred             EEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998 99999999999999999


Q ss_pred             HHHHHcCCCcccc
Q 028507          165 KIAAALPGMETLS  177 (208)
Q Consensus       165 ~l~~~~~~~~~~~  177 (208)
                      .|+..+.......
T Consensus       166 ~la~~lk~~~~~~  178 (205)
T KOG0084|consen  166 TLAKELKQRKGLH  178 (205)
T ss_pred             HHHHHHHHhcccC
Confidence            9998886554443

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

Probab=100.00  E-value=1.5e-42  Score=240.63  Aligned_cols=201  Identities=78%  Similarity=1.162  Sum_probs=178.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+|++++|..+||||+||+++..+.|+..+.+|+++++....+.+.+..+++++|||+|+++|+.+.+.|++++.++
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~va   98 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   98 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEE
Confidence            46779999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCC-CCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGS-DVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      |+|||+++..+|+....|++.++...+. ++.|++|+||.||.+.++++.++.+..++++++.|+++||+.|.||+++|.
T Consensus        99 viVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFr  178 (221)
T KOG0094|consen   99 VIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFR  178 (221)
T ss_pred             EEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHH
Confidence            9999999999999999999999999886 589999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcccccccccc-ccccccccccCCCCCCCCCCCCCCC
Q 028507          165 KIAAALPGMETLSSTKQEE-MVDVNLRSTTGNASQSQSQSSGCSC  208 (208)
Q Consensus       165 ~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~c~~  208 (208)
                      .|+..+++.+......+.+ ...++.+...++  +.....+.|||
T Consensus       179 rIaa~l~~~~~~~~~~~~~~~~~i~~k~~~~~--~~~s~~~~~~C  221 (221)
T KOG0094|consen  179 RIAAALPGMEVLEILSKQESMVDINLKGSPNE--QQASKPGLCSC  221 (221)
T ss_pred             HHHHhccCccccccccccccceeEEccCCCCc--ccccCCCCCCC
Confidence            9999999887755433333 444444433221  12222566888

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

Probab=100.00  E-value=1e-40  Score=231.48  Aligned_cols=172  Identities=41%  Similarity=0.791  Sum_probs=164.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ..++||+++|..+||||||+-|+..+.|.....+|++--+....+.+.+..+++.||||+|+++|.++-+-|+++++++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            46799999999999999999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||+++.+||..++.|+.++.....+++.+.++|||.|+.+.+++..+++..++...++.++++||+++.|++++|..|
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~I  162 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAI  162 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHH
Confidence            99999999999999999999999998889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCccccc
Q 028507          167 AAALPGMETLSS  178 (208)
Q Consensus       167 ~~~~~~~~~~~~  178 (208)
                      .+.+++......
T Consensus       163 a~~lp~~~~~~~  174 (200)
T KOG0092|consen  163 AEKLPCSDPQER  174 (200)
T ss_pred             HHhccCcccccc
Confidence            999987766544

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

Probab=100.00  E-value=1.1e-39  Score=230.21  Aligned_cols=172  Identities=45%  Similarity=0.740  Sum_probs=164.8

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |+..+....+||+++|.+|||||+|+.++..+.|...+..+.++++....+..++..+++++|||+|+++|..+...|++
T Consensus         4 ~~~~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyr   83 (207)
T KOG0078|consen    4 MAKEDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYR   83 (207)
T ss_pred             cccCCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHh
Confidence            33445577899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      +++++++|||+++..+|+++..|+..|..+..+++|+++|+||+|+.+.+++..++.+.+|.++|+.++|+||++|.||.
T Consensus        84 gA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~  163 (207)
T KOG0078|consen   84 GAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIE  163 (207)
T ss_pred             hcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      +.|-.|++.+.+
T Consensus       164 eaF~~La~~i~~  175 (207)
T KOG0078|consen  164 EAFLSLARDILQ  175 (207)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998875

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

Probab=100.00  E-value=1.2e-39  Score=219.29  Aligned_cols=178  Identities=38%  Similarity=0.652  Sum_probs=165.1

Q ss_pred             CCCCCC--CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhh
Q 028507            1 MAPVSA--LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY   78 (208)
Q Consensus         1 m~~~~~--~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   78 (208)
                      |...++  ...+||+++|.+|+|||+|+-+|..+.|+.....+++.++..+.+.+++..+++.||||+|+++|+.+.+.+
T Consensus         1 M~~~ss~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSy   80 (209)
T KOG0080|consen    1 MGDSSSGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSY   80 (209)
T ss_pred             CCCCccCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhH
Confidence            444433  456999999999999999999999999999988899999999999999999999999999999999999999


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF  157 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  157 (208)
                      ++++.++|+|||++.+++|..+..|++++..++. +++..++|+||+|...++.++.++...|++++++.++++||++.+
T Consensus        81 yRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~  160 (209)
T KOG0080|consen   81 YRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRE  160 (209)
T ss_pred             hccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhc
Confidence            9999999999999999999999999999998875 778889999999988889999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHcCCCccccc
Q 028507          158 NIKPLFRKIAAALPGMETLSS  178 (208)
Q Consensus       158 ~i~~~~~~l~~~~~~~~~~~~  178 (208)
                      ++...|+.++..+.+.+.-..
T Consensus       161 ~V~~~FeelveKIi~tp~l~~  181 (209)
T KOG0080|consen  161 NVQCCFEELVEKIIETPSLWE  181 (209)
T ss_pred             cHHHHHHHHHHHHhcCcchhh
Confidence            999999999999987766554

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

Probab=100.00  E-value=4.3e-39  Score=221.83  Aligned_cols=168  Identities=38%  Similarity=0.689  Sum_probs=160.9

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ....+|++++|+.|||||+|+.+++.+.|...+..|.++++-...+.++++.++++||||.|++.|++..+.+++++.++
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~Ga   82 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGA   82 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcce
Confidence            35679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |+|||+++.++|..+..|+..++++..+++.+++++||+|+...+.++.++.++||+++|+.++++||++++++++.|..
T Consensus        83 lLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~n  162 (216)
T KOG0098|consen   83 LLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFIN  162 (216)
T ss_pred             EEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHH
Confidence            99999999999999999999999999899999999999999999999999999999999999999999999999999998


Q ss_pred             HHHHcCCC
Q 028507          166 IAAALPGM  173 (208)
Q Consensus       166 l~~~~~~~  173 (208)
                      ....+.+.
T Consensus       163 ta~~Iy~~  170 (216)
T KOG0098|consen  163 TAKEIYRK  170 (216)
T ss_pred             HHHHHHHH
Confidence            88777543

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=5.2e-37  Score=224.23  Aligned_cols=163  Identities=35%  Similarity=0.671  Sum_probs=151.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +.|+++|..|||||||+++|..+.|...+.++.+.++....+.+++..+.+.|||++|+++|..++..+++++|++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            46999999999999999999999998888899888888888889998899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-CCeEEEeecCCCCChHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      |++++++|+.+..|+..+......++|+++|+||+|+.+.+++...+++.++.++ ++.++++||++|.|++++|++|++
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~  160 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVD  160 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHH
Confidence            9999999999999999888776678999999999999888888888888888875 789999999999999999999998


Q ss_pred             HcCC
Q 028507          169 ALPG  172 (208)
Q Consensus       169 ~~~~  172 (208)
                      .+.+
T Consensus       161 ~~~~  164 (202)
T cd04120         161 DILK  164 (202)
T ss_pred             HHHH
Confidence            8754

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

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

Probab=100.00  E-value=1.5e-38  Score=211.17  Aligned_cols=184  Identities=38%  Similarity=0.646  Sum_probs=170.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +-++.+|+|.+|+|||+|+.++..+.|..+|..+++.++....+.+++..+++.|||++|++.|+.+...++++.+++|+
T Consensus         7 hLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~v   86 (198)
T KOG0079|consen    7 HLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIV   86 (198)
T ss_pred             HHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEE
Confidence            45788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||+++.++|.++.+|+++++..+. .+|-++|+||.|..+.+.+..++++.|+...|+.+|++|+++.+|++..|..|.
T Consensus        87 VYDVTn~ESF~Nv~rWLeei~~ncd-sv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit  165 (198)
T KOG0079|consen   87 VYDVTNGESFNNVKRWLEEIRNNCD-SVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCIT  165 (198)
T ss_pred             EEECcchhhhHhHHHHHHHHHhcCc-cccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHH
Confidence            9999999999999999999998885 699999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCccccccccccccccccccc
Q 028507          168 AALPGMETLSSTKQEEMVDVNLRST  192 (208)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~  192 (208)
                      +.+.....+.+.++.+...+..+++
T Consensus       166 ~qvl~~k~r~~~~~~r~~~~~l~~n  190 (198)
T KOG0079|consen  166 KQVLQAKLRESVEQQRADAVSLKDN  190 (198)
T ss_pred             HHHHHHHHhhcHHHHhhcceEeccC
Confidence            9988777666666666555555554

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

Probab=100.00  E-value=1.3e-37  Score=214.15  Aligned_cols=203  Identities=36%  Similarity=0.589  Sum_probs=171.8

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |++...-.-+||+++|.+|+|||+|++++.+.+|...+-.+++.++..+.+.+++..+.++||||+|+++|.++--.+++
T Consensus         1 M~~~~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYR   80 (210)
T KOG0394|consen    1 MSSLRKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYR   80 (210)
T ss_pred             CCCcCcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceec
Confidence            55544445699999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCcc--cCCCHHHHHHHHHhcC-CeEEEeec
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEK--RQVSIEEGEAKSRELN-VMFIETSA  153 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~sa  153 (208)
                      ++|..++|||++++++|+.+..|.+++.....    ..-|.+|++||+|+...  ++++..+++.|+...| ++|||+||
T Consensus        81 gaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSA  160 (210)
T KOG0394|consen   81 GADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSA  160 (210)
T ss_pred             CCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecc
Confidence            99999999999999999999999999988775    44679999999998653  7899999999999776 69999999


Q ss_pred             CCCCChHHHHHHHHHHcCCCccccccccccccccccccccCCCCCCCCCCCCCCC
Q 028507          154 KAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGCSC  208 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  208 (208)
                      ++..|+.+.|+.+.+.+...+..     ................+...++++|.|
T Consensus       161 K~~~NV~~AFe~ia~~aL~~E~~-----~~~~~~~~~d~i~~~~~~~~~~~~c~c  210 (210)
T KOG0394|consen  161 KEATNVDEAFEEIARRALANEDR-----EIAELADYSDQIVLSTKANNQSSGCEC  210 (210)
T ss_pred             cccccHHHHHHHHHHHHHhccch-----hhhhhhhcCcccccccccccCCCCCCC
Confidence            99999999999999988766554     111122233333333344555667877

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=1.9e-36  Score=219.38  Aligned_cols=167  Identities=34%  Similarity=0.578  Sum_probs=153.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+++|..|+|||||+.+|..+.+...+.++.+.++....+.+++..+.+.+||++|++.|..++..+++++|++|+
T Consensus         5 ~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~ill   84 (189)
T cd04121           5 YLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIIL   84 (189)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEE
Confidence            46999999999999999999999998888877888888877778888888999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++++|+.+..|+..+.... +++|++||+||.|+.+.+.++.++++.++...+++++++||++|.|++++|++|+
T Consensus        85 VfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~  163 (189)
T cd04121          85 VYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELA  163 (189)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999999997665 5799999999999988788889999999999999999999999999999999999


Q ss_pred             HHcCCCcc
Q 028507          168 AALPGMET  175 (208)
Q Consensus       168 ~~~~~~~~  175 (208)
                      +.+.....
T Consensus       164 ~~i~~~~~  171 (189)
T cd04121         164 RIVLMRHG  171 (189)
T ss_pred             HHHHHhcC
Confidence            87754333

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=1.9e-36  Score=222.35  Aligned_cols=165  Identities=36%  Similarity=0.591  Sum_probs=148.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +||+|+|++|+|||||+++|+++.+...+.++.+.++....+.++ +..+.+.+||++|++.+..++..+++++|++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            589999999999999999999999988888998888877777777 7788999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-CeEEEeecCCCCChHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTER----GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~----~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~  163 (208)
                      ||++++++++.+..|+..+....    ..++|+++|+||.|+.+.+....+++..++...+ ..++++||++|.|++++|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  160 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAM  160 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHH
Confidence            99999999999999999886542    3568999999999997667778889999999998 599999999999999999


Q ss_pred             HHHHHHcCCCc
Q 028507          164 RKIAAALPGME  174 (208)
Q Consensus       164 ~~l~~~~~~~~  174 (208)
                      ++|.+.+.+..
T Consensus       161 ~~l~~~l~~~~  171 (201)
T cd04107         161 RFLVKNILAND  171 (201)
T ss_pred             HHHHHHHHHhc
Confidence            99999886543

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.

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=9.5e-36  Score=220.60  Aligned_cols=167  Identities=37%  Similarity=0.690  Sum_probs=154.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+++|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.|||++|++++..++..+++.++++|
T Consensus        10 ~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~i   89 (216)
T PLN03110         10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (216)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEE
Confidence            46799999999999999999999999988888889888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        90 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l  169 (216)
T PLN03110         90 LVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTI  169 (216)
T ss_pred             EEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988776789999999999998777888888888888889999999999999999999999


Q ss_pred             HHHcCCC
Q 028507          167 AAALPGM  173 (208)
Q Consensus       167 ~~~~~~~  173 (208)
                      +..+.+.
T Consensus       170 ~~~i~~~  176 (216)
T PLN03110        170 LLEIYHI  176 (216)
T ss_pred             HHHHHHH
Confidence            9888654

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

Probab=100.00  E-value=1.8e-36  Score=213.21  Aligned_cols=169  Identities=36%  Similarity=0.702  Sum_probs=161.8

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      +-.+.+||+++|++++|||-|+.++..+.|.....+|+++++....+.++++.++.+||||+|+++|+.....+++++.+
T Consensus        10 ~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvG   89 (222)
T KOG0087|consen   10 EYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVG   89 (222)
T ss_pred             ccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccce
Confidence            44678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      .++|||++...+|+.+.+|+.+++.+..+++++++|+||+|+...+.+..++++.++...+..++++||.+..|+++.|+
T Consensus        90 AllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~  169 (222)
T KOG0087|consen   90 ALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFE  169 (222)
T ss_pred             eEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028507          165 KIAAALPGM  173 (208)
Q Consensus       165 ~l~~~~~~~  173 (208)
                      .++..+.+.
T Consensus       170 ~~l~~I~~~  178 (222)
T KOG0087|consen  170 RVLTEIYKI  178 (222)
T ss_pred             HHHHHHHHH
Confidence            888877544

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=2.3e-35  Score=216.15  Aligned_cols=183  Identities=36%  Similarity=0.630  Sum_probs=159.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.|||+||++.+..++..++++++++|+
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iil   84 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIV   84 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEE
Confidence            46899999999999999999999999988888888888877888888888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||+++++++..+..|+..+.... +..|+++|+||+|+.+...+...+...++...+++++++|+++|.|+.++|++|.
T Consensus        85 v~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~  163 (199)
T cd04110          85 VYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCIT  163 (199)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHHH
Confidence            999999999999999999987654 5689999999999987777778888888888899999999999999999999999


Q ss_pred             HHcCCCcccccccccccccccccc
Q 028507          168 AALPGMETLSSTKQEEMVDVNLRS  191 (208)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~  191 (208)
                      ..+..........+....+.....
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~  187 (199)
T cd04110         164 ELVLRAKKDNLAKQQQQQQNDVVK  187 (199)
T ss_pred             HHHHHhhhccCcccccCCccccCc
Confidence            999776655555554444444333

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

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=2.6e-35  Score=217.53  Aligned_cols=165  Identities=34%  Similarity=0.561  Sum_probs=141.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+|+|.+|+|||||+++|..+.+.. ..++.+.++.....    ..+.+.|||++|++.+..+...+++.+|++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999999864 46666655443322    3578999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc-------------------ccCCCHHHHHHHHHhcC-----
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE-------------------KRQVSIEEGEAKSRELN-----  145 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~-------------------~~~~~~~~~~~~~~~~~-----  145 (208)
                      |++++++|+.+..|+..+......++|+++|+||+|+.+                   .+.+..+++..++.+.+     
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~  155 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKML  155 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccc
Confidence            999999999999988888776667799999999999975                   57788899999998876     


Q ss_pred             ---------CeEEEeecCCCCChHHHHHHHHHHcCCCcccccc
Q 028507          146 ---------VMFIETSAKAGFNIKPLFRKIAAALPGMETLSST  179 (208)
Q Consensus       146 ---------~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~  179 (208)
                               ++|+++||++|.|++++|..+++.+.+.......
T Consensus       156 ~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~  198 (220)
T cd04126         156 DEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRA  198 (220)
T ss_pred             cccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhh
Confidence                     6899999999999999999999988765554443

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

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=8.4e-35  Score=207.49  Aligned_cols=163  Identities=35%  Similarity=0.661  Sum_probs=150.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|++|+|||||+++|..+.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++++|++|+|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            38999999999999999999999999888888888787777788888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||++++++++.+..|+..+.....++.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|+.++|.+++.
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~  161 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAK  161 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999988776677999999999999888888888999999999999999999999999999999987


Q ss_pred             HcC
Q 028507          169 ALP  171 (208)
Q Consensus       169 ~~~  171 (208)
                      .+.
T Consensus       162 ~~~  164 (166)
T cd04122         162 KIY  164 (166)
T ss_pred             HHh
Confidence            663

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

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=1e-34  Score=211.52  Aligned_cols=165  Identities=42%  Similarity=0.742  Sum_probs=148.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +||+++|++|+|||||+++|..+.+.. .+.++.+.++....+.+++..+.+.|||+||++.+...+..+++.+|++|+|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            589999999999999999999988853 5677777777777778888889999999999999998888999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||++++++++.+..|+..+......++|+++|+||.|+...+.+...+...++..++++++++||++|.|++++|.+|.+
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~  160 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAK  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999998876667999999999999777777778888888888999999999999999999999999


Q ss_pred             HcCCCc
Q 028507          169 ALPGME  174 (208)
Q Consensus       169 ~~~~~~  174 (208)
                      .+.+..
T Consensus       161 ~~~~~~  166 (191)
T cd04112         161 ELKHRK  166 (191)
T ss_pred             HHHHhc
Confidence            886554

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.

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

Probab=100.00  E-value=1.6e-35  Score=197.94  Aligned_cols=183  Identities=34%  Similarity=0.588  Sum_probs=164.4

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCC
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDS   82 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   82 (208)
                      +-+.+.-+|++++|+.|+|||+|++++..+++......++++++....+.+.++.++++||||+|+++|++..+.+++++
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGA   82 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   82 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccc
Confidence            33445678999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      .+.++|||+++.++|+.+..|+..++....+++-+++++||.|+.++++++..++..|+.+..+.++++|+++|+|+++.
T Consensus        83 AGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEa  162 (214)
T KOG0086|consen   83 AGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEA  162 (214)
T ss_pred             cceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHH
Confidence            99999999999999999999999999999899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcC-CCcccccccccccc
Q 028507          163 FRKIAAALP-GMETLSSTKQEEMV  185 (208)
Q Consensus       163 ~~~l~~~~~-~~~~~~~~~~~~~~  185 (208)
                      |-.....+. +++...-.++...+
T Consensus       163 Fl~c~~tIl~kIE~GElDPer~gs  186 (214)
T KOG0086|consen  163 FLKCARTILNKIESGELDPERMGS  186 (214)
T ss_pred             HHHHHHHHHHHHhhcCCCHHHccc
Confidence            876666553 44444433333333

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=1.6e-34  Score=213.23  Aligned_cols=165  Identities=38%  Similarity=0.714  Sum_probs=148.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEE-CCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      .+||+|+|++|+|||||+++|+++.+...+.++.+.++....+.+ ++..+.+.+||++|++.+..++..+++++|++|+
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            589999999999999999999999988877888888877777766 4557899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      |||++++++++.+..|+..+..... ...|+++|+||.|+.+.+.+...+...++..++++++++||++|.|++++|++|
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l  161 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELL  161 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999999999977654 457789999999998877888888999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028507          167 AAALPGM  173 (208)
Q Consensus       167 ~~~~~~~  173 (208)
                      ++.+.+.
T Consensus       162 ~~~~~~~  168 (211)
T cd04111         162 TQEIYER  168 (211)
T ss_pred             HHHHHHH
Confidence            9877544

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.

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=6.5e-35  Score=212.39  Aligned_cols=185  Identities=32%  Similarity=0.531  Sum_probs=152.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|.+|+|||||+++|..+.+...+.++.+..+ ......++..+.+.||||+|++++..++..+++++|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            689999999999999999999988777777776443 3455677888899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTERG---SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~---~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ++++++++.+..|+..+.....   .++|+++|+||+|+.+.+.+...+...++..++++++++||++|.|++++|++++
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~  159 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV  159 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999998876543   5689999999999987777888888888888899999999999999999999999


Q ss_pred             HHcCCCccccccccccccccccccccCCCCCCCCCCCCCCC
Q 028507          168 AALPGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGCSC  208 (208)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  208 (208)
                      +.+.+......            ...+.+..+++++.+|||
T Consensus       160 ~~l~~~~~~~~------------~~~~~~~~~~~~~~~~~~  188 (190)
T cd04144         160 RALRQQRQGGQ------------GPKGGPTKKKEKKKRKCV  188 (190)
T ss_pred             HHHHHhhcccC------------CCcCCCCCcccccccCce
Confidence            87753333321            112333344566677775

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.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=1.9e-34  Score=214.15  Aligned_cols=166  Identities=27%  Similarity=0.475  Sum_probs=147.4

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      .....+||+++|++|||||+|+.+|..+.|...+.++.+.++ ...+.+++..+.+.||||+|++.|..+...+++++|+
T Consensus         9 ~~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~-~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~   87 (232)
T cd04174           9 PLVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA   87 (232)
T ss_pred             CceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeee-EEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcE
Confidence            335679999999999999999999999999988888887665 4457788899999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCc------------ccCCCHHHHHHHHHhcCC-eEEE
Q 028507           85 AVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVE------------KRQVSIEEGEAKSRELNV-MFIE  150 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~  150 (208)
                      +|+|||++++++|+. +..|+..+.... ++.|+++|+||+|+.+            .+.++.++++.++..+++ .|++
T Consensus        88 vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~E  166 (232)
T cd04174          88 VLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLE  166 (232)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEE
Confidence            999999999999998 589999998765 5689999999999864            256888999999999998 7999


Q ss_pred             eecCCCC-ChHHHHHHHHHHcCC
Q 028507          151 TSAKAGF-NIKPLFRKIAAALPG  172 (208)
Q Consensus       151 ~sa~~~~-~i~~~~~~l~~~~~~  172 (208)
                      |||++|. +++++|..++..+.+
T Consensus       167 tSAktg~~~V~e~F~~~~~~~~~  189 (232)
T cd04174         167 CSAFTSEKSIHSIFRSASLLCLN  189 (232)
T ss_pred             ccCCcCCcCHHHHHHHHHHHHHH
Confidence            9999998 899999999887653

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.

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=2.6e-34  Score=212.96  Aligned_cols=164  Identities=38%  Similarity=0.597  Sum_probs=148.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC-EEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +||+++|.+|+|||||+++|.++.+...+.++.+.++....+.+++ ..+.+.|||++|++.+..++..+++++|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999999888899999888877777754 468999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG---SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~---~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      ||++++++++.+..|+..+.....   .+.|+++|+||.|+.+.+.+...+...++..++++++++||++|+|++++|++
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~  160 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQ  160 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999999999987653   35789999999999877788888889999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028507          166 IAAALPGM  173 (208)
Q Consensus       166 l~~~~~~~  173 (208)
                      |+..+...
T Consensus       161 l~~~l~~~  168 (215)
T cd04109         161 LAAELLGV  168 (215)
T ss_pred             HHHHHHhc
Confidence            99988653

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

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

Probab=100.00  E-value=1.5e-35  Score=197.33  Aligned_cols=163  Identities=40%  Similarity=0.691  Sum_probs=156.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      -+||++||+.|+|||+|+++++.+-|++....+++.++..+.+.+++.++++.||||+|+++|++....+++.++++|+|
T Consensus         7 lfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalilv   86 (213)
T KOG0095|consen    7 LFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILV   86 (213)
T ss_pred             eEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEE
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||++...+|+-+-+|+.+|..+....+.-|+|+||+|+.+.+++.....++|+......++++||++..|++.+|..++.
T Consensus        87 ydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~  166 (213)
T KOG0095|consen   87 YDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLAC  166 (213)
T ss_pred             EecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHH
Confidence            99999999999999999999999888999999999999999999999999999998889999999999999999998877


Q ss_pred             HcC
Q 028507          169 ALP  171 (208)
Q Consensus       169 ~~~  171 (208)
                      .+-
T Consensus       167 rli  169 (213)
T KOG0095|consen  167 RLI  169 (213)
T ss_pred             HHH
Confidence            663

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=1.7e-34  Score=207.00  Aligned_cols=160  Identities=35%  Similarity=0.583  Sum_probs=143.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||+|+.++..+.|...+.++.+..+ ...+.+++..+++.||||+|+++|..+...+++++|++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            6899999999999999999999999888889887655 455677888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCccc----------CCCHHHHHHHHHhcCC-eEEEeecCCCC
Q 028507           90 DVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEKR----------QVSIEEGEAKSRELNV-MFIETSAKAGF  157 (208)
Q Consensus        90 d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~sa~~~~  157 (208)
                      |++++++|+.+ ..|+..+.... +++|+++|+||+|+.+.+          .++.+++..++...++ .++++||++|.
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~  159 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQ  159 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCccc
Confidence            99999999998 68999997665 479999999999996543          4788899999999998 69999999999


Q ss_pred             ChHHHHHHHHHHcC
Q 028507          158 NIKPLFRKIAAALP  171 (208)
Q Consensus       158 ~i~~~~~~l~~~~~  171 (208)
                      |++++|+.+++.+.
T Consensus       160 nV~~~F~~~~~~~~  173 (176)
T cd04133         160 NVKAVFDAAIKVVL  173 (176)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998763

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,

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=2.4e-34  Score=207.36  Aligned_cols=162  Identities=26%  Similarity=0.503  Sum_probs=145.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+++|.+|+|||||++++..+.+...+.|+.+..+ ...+.+++..+.+.||||+|++.|..+...+++++|++|
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~i   81 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   81 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEE
Confidence            3568999999999999999999999999888888887554 456778888999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCc------------ccCCCHHHHHHHHHhcCC-eEEEee
Q 028507           87 VVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVE------------KRQVSIEEGEAKSRELNV-MFIETS  152 (208)
Q Consensus        87 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~s  152 (208)
                      +|||++++++|+.+ ..|+..+.... ++.|+++|+||.|+.+            .+.++.++++.++..+++ +|+++|
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~S  160 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  160 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECC
Confidence            99999999999997 79999998765 5799999999999864            245889999999999996 999999


Q ss_pred             cCCCCC-hHHHHHHHHHHc
Q 028507          153 AKAGFN-IKPLFRKIAAAL  170 (208)
Q Consensus       153 a~~~~~-i~~~~~~l~~~~  170 (208)
                      |++|.| ++++|..++..+
T Consensus       161 Ak~~~n~v~~~F~~~~~~~  179 (182)
T cd04172         161 ALQSENSVRDIFHVATLAC  179 (182)
T ss_pred             cCCCCCCHHHHHHHHHHHH
Confidence            999998 999999998754

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

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=4.2e-34  Score=207.85  Aligned_cols=163  Identities=41%  Similarity=0.696  Sum_probs=149.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++++|++|+||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            58999999999999999999999998778888887777777888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |+++++++..+..|+..+.......+|+++|+||.|+.+...+...++..++...+++++++||+++.|++++|++|.+.
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~  160 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKL  160 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999988776679999999999998777778888888888889999999999999999999999998


Q ss_pred             cCC
Q 028507          170 LPG  172 (208)
Q Consensus       170 ~~~  172 (208)
                      +.+
T Consensus       161 ~~~  163 (188)
T cd04125         161 IIK  163 (188)
T ss_pred             HHH
Confidence            853

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.

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=3.7e-34  Score=203.95  Aligned_cols=162  Identities=37%  Similarity=0.708  Sum_probs=147.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.++++...+.++.+.++....+..++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999998888888887777777777777889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |++++++++.+..|+..+........|+++|+||+|+.+.+....++...++..++++++++||+++.|+.++|++|...
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  161 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDI  161 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            99999999999999999987766679999999999998777777788888888889999999999999999999999887


Q ss_pred             cC
Q 028507          170 LP  171 (208)
Q Consensus       170 ~~  171 (208)
                      +.
T Consensus       162 ~~  163 (165)
T cd01865         162 IC  163 (165)
T ss_pred             HH
Confidence            64

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

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=4.6e-34  Score=202.69  Aligned_cols=160  Identities=38%  Similarity=0.664  Sum_probs=147.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|.+.+..++..+++.+|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            58999999999999999999999998888888888887788888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |++++++++.+..|+..+......++|+++|+||.|+.+.+.+...++..+++.++++++++||++|.|++++|.+|++.
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            99999999999999999987765679999999999998888888889999999999999999999999999999999865

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

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=4e-34  Score=208.25  Aligned_cols=163  Identities=31%  Similarity=0.513  Sum_probs=142.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |..+||+++|..|+|||||+.++..+.|...+.++.+..+ ...+.+++..+.+.||||+|++.|..++..+++++|++|
T Consensus         1 ~~~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~i   79 (191)
T cd01875           1 MQSIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFI   79 (191)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEE
Confidence            4569999999999999999999999999888888887544 445667888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc------------CCCHHHHHHHHHhcC-CeEEEee
Q 028507           87 VVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR------------QVSIEEGEAKSRELN-VMFIETS  152 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~s  152 (208)
                      +|||++++++|+.+. .|+..+.... +++|+++|+||.|+.+..            .+..++++.++..++ ++++++|
T Consensus        80 lvydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~S  158 (191)
T cd01875          80 ICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECS  158 (191)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeC
Confidence            999999999999996 6888787654 579999999999996542            356778889999888 5999999


Q ss_pred             cCCCCChHHHHHHHHHHcC
Q 028507          153 AKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~  171 (208)
                      |++|.|++++|+++++.+.
T Consensus       159 Ak~g~~v~e~f~~l~~~~~  177 (191)
T cd01875         159 ALNQDGVKEVFAEAVRAVL  177 (191)
T ss_pred             CCCCCCHHHHHHHHHHHHh
Confidence            9999999999999998774

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=4.9e-34  Score=203.73  Aligned_cols=164  Identities=42%  Similarity=0.739  Sum_probs=150.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||++|++.+......+++++|++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~   81 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEE
Confidence            45899999999999999999999999988888998888877788888888999999999999999888899999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||+++++++..+..|+..+......++|+++|+||.|+.+.+....++...++..++++++++||+++.|++++|+++.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~  161 (167)
T cd01867          82 VYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLA  161 (167)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999999887667799999999999987777778888888888899999999999999999999999


Q ss_pred             HHcC
Q 028507          168 AALP  171 (208)
Q Consensus       168 ~~~~  171 (208)
                      +.+.
T Consensus       162 ~~~~  165 (167)
T cd01867         162 KDIK  165 (167)
T ss_pred             HHHH
Confidence            8764

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

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

Probab=100.00  E-value=2.8e-35  Score=195.36  Aligned_cols=168  Identities=36%  Similarity=0.685  Sum_probs=159.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+|+.++|++.+|||+|+.++.+..|.....++.++++..+.+.-..+.++++||||.|++.|+.+...++++++++|+
T Consensus        20 ymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiL   99 (193)
T KOG0093|consen   20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (193)
T ss_pred             ceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEE
Confidence            35799999999999999999999999999999999999999988888889999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      +||+++.++|..++.|...|..++-.+.|+|+++||+|+.+++.++.++.+.++.++|+.+|++||+.+.|++.+|+.+.
T Consensus       100 myDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv  179 (193)
T KOG0093|consen  100 MYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERLV  179 (193)
T ss_pred             EEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHHH
Confidence            99999999999999999999998889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCcc
Q 028507          168 AALPGMET  175 (208)
Q Consensus       168 ~~~~~~~~  175 (208)
                      ..+.+...
T Consensus       180 ~~Ic~kms  187 (193)
T KOG0093|consen  180 DIICDKMS  187 (193)
T ss_pred             HHHHHHhh
Confidence            98875543

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=1.3e-33  Score=208.45  Aligned_cols=165  Identities=36%  Similarity=0.704  Sum_probs=150.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+|+|++|+|||||+++|....+...+.++.+.++....+.+++..+.+.+||++|++.+..++..+++.+|++|+
T Consensus         5 ~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vl   84 (210)
T PLN03108          5 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALL   84 (210)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEE
Confidence            46999999999999999999999999888888888888877788888888899999999999999888999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||+++++++..+..|+..+.......+|+++|+||.|+.+.+.+...+.++++..++++++++||+++.|++++|++++
T Consensus        85 v~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~  164 (210)
T PLN03108         85 VYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTA  164 (210)
T ss_pred             EEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999988777667899999999999988777888899999999999999999999999999999998


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       165 ~~~~~  169 (210)
T PLN03108        165 AKIYK  169 (210)
T ss_pred             HHHHH
Confidence            87753

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=4.9e-34  Score=204.53  Aligned_cols=163  Identities=33%  Similarity=0.534  Sum_probs=146.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|.+|+|||||++++..+.+...+.++.+..+ ...+.+++..+.+.+||++|.+.+..++..+++.+|++|+|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            58999999999999999999999999887788876444 44567788888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.++.++...++..++++++++||++|.|++++|++|+
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~  160 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLV  160 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHH
Confidence            99999999999999988887654 36799999999999987778888899999999999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      ..+.+
T Consensus       161 ~~~~~  165 (172)
T cd04141         161 REIRR  165 (172)
T ss_pred             HHHHH
Confidence            87653

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

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=5e-34  Score=207.55  Aligned_cols=165  Identities=32%  Similarity=0.552  Sum_probs=146.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +.++||+++|.+|+|||||++++..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++++..++..+++.+|++|
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~ii   81 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFL   81 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEE
Confidence            5679999999999999999999999998877777776544 556677888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++++++.+..|+..+..... .++|+++|+||.|+.+.+.+...++..++..++++++++||+++.|+.++|++
T Consensus        82 lv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~  161 (189)
T PTZ00369         82 CVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYE  161 (189)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHH
Confidence            99999999999999999998876543 57899999999998776777777888888888899999999999999999999


Q ss_pred             HHHHcCC
Q 028507          166 IAAALPG  172 (208)
Q Consensus       166 l~~~~~~  172 (208)
                      |++.+.+
T Consensus       162 l~~~l~~  168 (189)
T PTZ00369        162 LVREIRK  168 (189)
T ss_pred             HHHHHHH
Confidence            9988753

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=6e-34  Score=204.85  Aligned_cols=160  Identities=27%  Similarity=0.522  Sum_probs=142.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|++|+|||+|++++..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++.|..+...+++++|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            47999999999999999999999999888888887554 45677888899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCc------------ccCCCHHHHHHHHHhcCC-eEEEeecC
Q 028507           89 YDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVE------------KRQVSIEEGEAKSRELNV-MFIETSAK  154 (208)
Q Consensus        89 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~  154 (208)
                      ||++++++|+.+ ..|+..+.... ++.|+++|+||.|+.+            .+.++.+++++++..+++ .++++||+
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~  158 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAF  158 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccC
Confidence            999999999995 79999998765 5799999999999854            245788999999999997 89999999


Q ss_pred             CCCC-hHHHHHHHHHHc
Q 028507          155 AGFN-IKPLFRKIAAAL  170 (208)
Q Consensus       155 ~~~~-i~~~~~~l~~~~  170 (208)
                      +|.+ ++++|..+++..
T Consensus       159 ~~~~~v~~~F~~~~~~~  175 (178)
T cd04131         159 TSEKSVRDIFHVATMAC  175 (178)
T ss_pred             cCCcCHHHHHHHHHHHH
Confidence            9995 999999998853

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=1.2e-33  Score=201.46  Aligned_cols=163  Identities=40%  Similarity=0.734  Sum_probs=149.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            48999999999999999999999998888888888777777888888888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||+++++++..+..|+..+.....++.|+++|+||.|+.+.+.+...++..++...+++++++||++|.|+.++|++|.+
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~  161 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAR  161 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHH
Confidence            99999999999999999998776667999999999999877778888889999999999999999999999999999998


Q ss_pred             HcC
Q 028507          169 ALP  171 (208)
Q Consensus       169 ~~~  171 (208)
                      .+.
T Consensus       162 ~~~  164 (166)
T cd01869         162 EIK  164 (166)
T ss_pred             HHH
Confidence            763

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

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

Probab=100.00  E-value=1.2e-33  Score=200.58  Aligned_cols=160  Identities=42%  Similarity=0.763  Sum_probs=152.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|++|+|||||+++|.++.+...+.++.+.+.....+..++..+.+.+||++|++.+..+...++.++|++|+|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999999999999899999999999999999999999999999988999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507           91 VASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++++++++.+..|+..+......++|+++++||.|+.+.+.+..++++.++..++.+|+++|++++.++.++|..+++.+
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i  160 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKI  160 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            99999999999999999988876799999999999988889999999999999999999999999999999999998876

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 ....

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=3.5e-33  Score=206.45  Aligned_cols=168  Identities=38%  Similarity=0.650  Sum_probs=144.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|++|+|||||+++|.++.+. .+.++.+.+.....+.+++..+.+.||||||++.+..++..+++.+|++|
T Consensus        12 ~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~v   90 (211)
T PLN03118         12 DLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGII   90 (211)
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            45799999999999999999999988773 55677777777777778888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHH-HHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           87 VVYDVASRQSFLNTSK-WIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~-~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|||+++++++..+.. |...+.... ..+.|+++|+||.|+.....+...+...++..+++.++++||+++.|++++|+
T Consensus        91 lv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~  170 (211)
T PLN03118         91 LVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFE  170 (211)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            9999999999999876 555554433 24589999999999987777777888888888899999999999999999999


Q ss_pred             HHHHHcCCCcc
Q 028507          165 KIAAALPGMET  175 (208)
Q Consensus       165 ~l~~~~~~~~~  175 (208)
                      +|...+.+.+.
T Consensus       171 ~l~~~~~~~~~  181 (211)
T PLN03118        171 ELALKIMEVPS  181 (211)
T ss_pred             HHHHHHHhhhh
Confidence            99999876543

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=2e-33  Score=200.38  Aligned_cols=162  Identities=30%  Similarity=0.595  Sum_probs=148.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+++||++|++.+..++..+++.+|++|+||
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999998888999988888888888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-----CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-----SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-----~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      |++++.+++.+..|+..+.....     .+.|+++|+||.|+.+.......+...++...+++++++||+++.|+.++|+
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  160 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQ  160 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999987654     4689999999999976666778888888888899999999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      +|.+.+.
T Consensus       161 ~l~~~l~  167 (168)
T cd04119         161 TLFSSIV  167 (168)
T ss_pred             HHHHHHh
Confidence            9988763

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=2.9e-33  Score=199.31  Aligned_cols=163  Identities=40%  Similarity=0.706  Sum_probs=147.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.+||+++|++|+|||||++++.++.+...+.++.+.+.....+.+++..+.+.+||+||++.+..++..+++.+|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            46899999999999999999999999888888888877777788888887899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l  166 (208)
                      |||++++.++..+..|+..+......++|+++|+||+|+.+.+.....++..++...+. .++++||++|.|++++|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l  161 (165)
T cd01864          82 AYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLM  161 (165)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999876667799999999999988777788888888888886 78999999999999999999


Q ss_pred             HHHc
Q 028507          167 AAAL  170 (208)
Q Consensus       167 ~~~~  170 (208)
                      .+.+
T Consensus       162 ~~~l  165 (165)
T cd01864         162 ATEL  165 (165)
T ss_pred             HHhC
Confidence            8753

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.

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=1.5e-33  Score=203.50  Aligned_cols=164  Identities=38%  Similarity=0.649  Sum_probs=147.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC----------CEEEEEEEEEcCCchhhhhchhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE----------DRTVRLQLWDTAGQERFRSLIPS   77 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~i~D~~G~~~~~~~~~~   77 (208)
                      +.+||+++|++|+|||||++++..+.+...+.++.+.++....+.+.          +..+.+.|||++|++.+..++..
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTA   82 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHH
Confidence            45899999999999999999999999988888888877766655553          35688999999999999999999


Q ss_pred             hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC
Q 028507           78 YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      +++++|++|+|||+++++++..+..|+..+.... .++.|+++|+||+|+.+.+.+...++..++...+++++++||+++
T Consensus        83 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~  162 (180)
T cd04127          83 FFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATG  162 (180)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCC
Confidence            9999999999999999999999999999987654 357899999999999887888888899999999999999999999


Q ss_pred             CChHHHHHHHHHHcC
Q 028507          157 FNIKPLFRKIAAALP  171 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~  171 (208)
                      .|++++|++|.+.+.
T Consensus       163 ~~v~~l~~~l~~~~~  177 (180)
T cd04127         163 TNVEKAVERLLDLVM  177 (180)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999988663

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

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

Probab=100.00  E-value=1.7e-34  Score=194.96  Aligned_cols=164  Identities=39%  Similarity=0.703  Sum_probs=151.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEE-CCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ..++++++|++-+|||+|++.++.+++.+-..|+.+.+++...+.. ++..+++++|||+|+++|++....++++.-+++
T Consensus         7 yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvl   86 (213)
T KOG0091|consen    7 YQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVL   86 (213)
T ss_pred             EEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceE
Confidence            5689999999999999999999999999999999999988766655 456789999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCc-EEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVI-IVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p-iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|||+++.++|+.+..|+.+...+.. +..+ ..+|++|.|+...++++.++++.++..+|..++++|+++|.|+++.|.
T Consensus        87 lvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~  166 (213)
T KOG0091|consen   87 LVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFD  166 (213)
T ss_pred             EEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHH
Confidence            99999999999999999999887776 5555 467889999999999999999999999999999999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      .|.+.+.
T Consensus       167 mlaqeIf  173 (213)
T KOG0091|consen  167 MLAQEIF  173 (213)
T ss_pred             HHHHHHH
Confidence            9988774

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=1.5e-33  Score=203.50  Aligned_cols=165  Identities=22%  Similarity=0.513  Sum_probs=144.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            58999999999999999999999998888999988887788888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc-----cCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK-----RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~-----~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      |++++++++.+..|+..+........| ++|+||+|+...     ......+.+.++...+++++++||++|.|++++|+
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~  159 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFK  159 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999999876555567 678999998531     11224566778888899999999999999999999


Q ss_pred             HHHHHcCCCcc
Q 028507          165 KIAAALPGMET  175 (208)
Q Consensus       165 ~l~~~~~~~~~  175 (208)
                      ++.+.+.+.+.
T Consensus       160 ~l~~~l~~~~~  170 (182)
T cd04128         160 IVLAKAFDLPL  170 (182)
T ss_pred             HHHHHHHhcCC
Confidence            99988865433

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

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=3e-33  Score=198.43  Aligned_cols=161  Identities=39%  Similarity=0.723  Sum_probs=148.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+|+|++|+|||||+++|+++.+.....++.+.++....+.+++..+.+.+||+||++.+..+...+++++|++|+||
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            68999999999999999999999988888888887777777888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |++++.++..+..|+..+.....+++|+++++||.|+.+.+.....++..++...++.++++|++++.|+.++|+++++.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999999999887777889999999999998877788888999999999999999999999999999999875


Q ss_pred             c
Q 028507          170 L  170 (208)
Q Consensus       170 ~  170 (208)
                      +
T Consensus       161 ~  161 (161)
T cd04113         161 I  161 (161)
T ss_pred             C
Confidence            3

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

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=4.5e-33  Score=198.30  Aligned_cols=163  Identities=37%  Similarity=0.743  Sum_probs=149.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+++|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+..+...+++.++++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            35899999999999999999999999888888888888888888888888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++.++..+..|+..+......++|+++|+||.|+...+....++...++...++.++++||++|.|++++|+++.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  161 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLL  161 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999999887766799999999999987777778888888888889999999999999999999998


Q ss_pred             HHc
Q 028507          168 AAL  170 (208)
Q Consensus       168 ~~~  170 (208)
                      ..+
T Consensus       162 ~~i  164 (165)
T cd01868         162 TEI  164 (165)
T ss_pred             HHh
Confidence            765

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

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=2.4e-33  Score=199.18  Aligned_cols=161  Identities=34%  Similarity=0.563  Sum_probs=142.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+++|++|+|||||++++..+.+...+.++.+ +.....+.+++..+.+.|||++|++++..++..+++++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   79 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEE
Confidence            47999999999999999999999988777777765 44456677788888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ||++++++++.+..|+..+..... .++|+++|+||+|+.+.+.....+...++..++.+++++||+++.|+.++|+++.
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04136          80 YSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999999877543 5799999999999977666777777778888889999999999999999999998


Q ss_pred             HHc
Q 028507          168 AAL  170 (208)
Q Consensus       168 ~~~  170 (208)
                      +.+
T Consensus       160 ~~~  162 (163)
T cd04136         160 RQI  162 (163)
T ss_pred             Hhc
Confidence            765

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.

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=4.8e-33  Score=198.81  Aligned_cols=163  Identities=37%  Similarity=0.717  Sum_probs=149.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+|+|.+|+|||||++++.++.+...+.++.+.+.....+..++....+.+||++|++.+..+...+++.+|++|+|
T Consensus         4 ~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v   83 (168)
T cd01866           4 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLV   83 (168)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEE
Confidence            48999999999999999999999998888888888888778888888888999999999999999889999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||+++++++..+..|+..+.....+++|+++|+||.|+.+......++...++...++.++++|++++.|++++|.++.+
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~  163 (168)
T cd01866          84 YDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAK  163 (168)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999998876678999999999999877777888888888889999999999999999999999988


Q ss_pred             HcC
Q 028507          169 ALP  171 (208)
Q Consensus       169 ~~~  171 (208)
                      .+.
T Consensus       164 ~~~  166 (168)
T cd01866         164 EIY  166 (168)
T ss_pred             HHH
Confidence            764

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

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=7.7e-33  Score=202.00  Aligned_cols=164  Identities=37%  Similarity=0.653  Sum_probs=143.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +||+|+|.+|+|||||+++|.++.+.. .+.++.+.++....+.+++..+.+.+||++|.+++..+...++.++|++|+|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            589999999999999999999998864 5777877777777788888889999999999999998888899999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc----cCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK----RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~----~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      ||++++++++.+..|+..+.... +++|+++|+||.|+.+.    ..+...++..++...+++++++||+++.|++++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  159 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ  159 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999887653 46999999999998643    34555677788888889999999999999999999


Q ss_pred             HHHHHcCCCc
Q 028507          165 KIAAALPGME  174 (208)
Q Consensus       165 ~l~~~~~~~~  174 (208)
                      +|.+.+.+..
T Consensus       160 ~i~~~~~~~~  169 (193)
T cd04118         160 KVAEDFVSRA  169 (193)
T ss_pred             HHHHHHHHhc
Confidence            9999886543

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=7.7e-33  Score=204.55  Aligned_cols=162  Identities=23%  Similarity=0.503  Sum_probs=140.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+|+|.+|+|||+|+++|..+.++..+.|+.+..+ ...+.+++..+.+.||||+|++.|..+...+++++|++|+|
T Consensus         1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~-~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illv   79 (222)
T cd04173           1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENY-TASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLIC   79 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccce-EEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEE
Confidence            37999999999999999999999999988889887555 35677888899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEeecC
Q 028507           89 YDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIETSAK  154 (208)
Q Consensus        89 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~  154 (208)
                      ||++++++|+.+ ..|...+... .+++|+++|+||+|+.+.            ..++.++.+.++.+.++ .|+|+||+
T Consensus        80 fdis~~~Sf~~i~~~w~~~~~~~-~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk  158 (222)
T cd04173          80 FDISRPETLDSVLKKWQGETQEF-CPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSR  158 (222)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCC
Confidence            999999999998 4676666543 467999999999999652            13677889999999996 99999999


Q ss_pred             CCCC-hHHHHHHHHHHcCC
Q 028507          155 AGFN-IKPLFRKIAAALPG  172 (208)
Q Consensus       155 ~~~~-i~~~~~~l~~~~~~  172 (208)
                      ++.+ ++++|.........
T Consensus       159 ~~~~~V~~~F~~~~~~~~~  177 (222)
T cd04173         159 SSERSVRDVFHVATVASLG  177 (222)
T ss_pred             cCCcCHHHHHHHHHHHHHh
Confidence            9985 99999998886543

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

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=4.3e-33  Score=198.23  Aligned_cols=162  Identities=31%  Similarity=0.557  Sum_probs=142.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+++|.+|+|||||++++..+.+...+.++.+..+ ...+..++..+.+.+|||+|++.+..++..+++++|++|+|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            58999999999999999999998888777777776443 45677788888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.......+...++..++++++++||+++.|++++|+++.
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  159 (164)
T cd04175          80 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLV  159 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999999987654 36799999999999987777777777888888889999999999999999999999


Q ss_pred             HHcC
Q 028507          168 AALP  171 (208)
Q Consensus       168 ~~~~  171 (208)
                      +.+.
T Consensus       160 ~~l~  163 (164)
T cd04175         160 RQIN  163 (164)
T ss_pred             HHhh
Confidence            8764

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=6.1e-33  Score=205.83  Aligned_cols=165  Identities=32%  Similarity=0.579  Sum_probs=146.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +..+||+++|.+|||||||+++++.+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++++|++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            77899999999999999999999999998888999988888777777777899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||+++++++..+..|+..+.... +++|+++|+||+|+.. +.....+. .++...++.++++||++|.|++++|++|
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l  167 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYL  167 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHH
Confidence            9999999999999999999998764 5799999999999854 33344444 6677778899999999999999999999


Q ss_pred             HHHcCCCc
Q 028507          167 AAALPGME  174 (208)
Q Consensus       167 ~~~~~~~~  174 (208)
                      ++.+.+..
T Consensus       168 ~~~~~~~~  175 (219)
T PLN03071        168 ARKLAGDP  175 (219)
T ss_pred             HHHHHcCc
Confidence            99886543

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=8.5e-33  Score=196.25  Aligned_cols=159  Identities=38%  Similarity=0.711  Sum_probs=143.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC--CEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE--DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +||+++|.+|+|||||++++.++.+...+.++.+.++....+.+.  +..+.+.+||+||++++..++..+++++|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999999888888888888766666666  667899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++++++.+..|+..+.... .++|+++|+||.|+.....+..+++..++..++++++++|++++.|++++|++|.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999999987654 5699999999999988777888888899999999999999999999999999997


Q ss_pred             HH
Q 028507          168 AA  169 (208)
Q Consensus       168 ~~  169 (208)
                      ..
T Consensus       160 ~~  161 (162)
T cd04106         160 EK  161 (162)
T ss_pred             Hh
Confidence            64

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=1.2e-32  Score=197.04  Aligned_cols=163  Identities=36%  Similarity=0.625  Sum_probs=144.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|.+|+|||||++++.++.+...+.++.+.++....+.+++..+.+.+||++|++++..++..+++.+|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            79999999999999999999999998999999888887888888888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccC--CCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQ--VSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      +++++++..+..|+..+..... ...|+++|+||.|+.+...  ....+...++.+++.+++++||++|.|++++|+.|+
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~  161 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVA  161 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            9999999999999999866543 4578999999999865443  345566777888889999999999999999999999


Q ss_pred             HHcCCC
Q 028507          168 AALPGM  173 (208)
Q Consensus       168 ~~~~~~  173 (208)
                      ..+.+.
T Consensus       162 ~~~~~~  167 (170)
T cd04108         162 ALTFEL  167 (170)
T ss_pred             HHHHHc
Confidence            887543

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=8.4e-33  Score=200.83  Aligned_cols=166  Identities=30%  Similarity=0.460  Sum_probs=140.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +||+|+|++|+|||||+++|.++.+...+.++.+.++... +... +..+.+.||||+|++.+..+...++.++|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~-i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTN-IQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEE-EEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            5899999999999999999999999888878776655443 4443 6678999999999999999988899999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc----CCCHHHHHHHHHhcCC-eEEEeecCCCCChHHH
Q 028507           89 YDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR----QVSIEEGEAKSRELNV-MFIETSAKAGFNIKPL  162 (208)
Q Consensus        89 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~----~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~  162 (208)
                      ||++++++++.+. .|+..+... .+++|+++|+||.|+....    .+...++..++..+++ +++++||++|.|+.++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHF-CPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHH
Confidence            9999999999985 588777654 3579999999999986532    4667888889999998 9999999999999999


Q ss_pred             HHHHHHHcCCCcccc
Q 028507          163 FRKIAAALPGMETLS  177 (208)
Q Consensus       163 ~~~l~~~~~~~~~~~  177 (208)
                      |+.+.+.+.......
T Consensus       159 f~~l~~~~~~~~~~~  173 (187)
T cd04132         159 FDTAIEEALKKEGKA  173 (187)
T ss_pred             HHHHHHHHHhhhhhh
Confidence            999999886544433

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=1.7e-32  Score=195.00  Aligned_cols=162  Identities=46%  Similarity=0.801  Sum_probs=148.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.+..+.....++.+.++....+..++..+.+.+||+||++.+......+++.+|++|+||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            58999999999999999999999988888888888888888888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |++++++++.+..|+..+.....+++|+++++||+|+...+....+.+..++...+++++++|++++.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~  160 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELARE  160 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999988776789999999999997767777888888888889999999999999999999999987


Q ss_pred             cC
Q 028507          170 LP  171 (208)
Q Consensus       170 ~~  171 (208)
                      +.
T Consensus       161 ~~  162 (164)
T smart00175      161 IL  162 (164)
T ss_pred             Hh
Confidence            64

Rab GTPases are implicated in vesicle trafficking.

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

Probab=100.00  E-value=1.2e-32  Score=196.28  Aligned_cols=161  Identities=32%  Similarity=0.601  Sum_probs=141.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|||||||+++++.+.+...+.++.+.+.....+..++..+.+.+|||+|++.+..+...++..+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            58999999999999999999999888888888888877777777888899999999999999888888999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |+++++++..+..|+..+..... ++|+++|+||+|+.+. ... .+...++...++.++++||++|.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~~-~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  157 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKDR-KVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARK  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhcccc-cCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHH
Confidence            99999999999999999987764 7999999999998633 333 33455666777899999999999999999999988


Q ss_pred             cCCC
Q 028507          170 LPGM  173 (208)
Q Consensus       170 ~~~~  173 (208)
                      +.+.
T Consensus       158 ~~~~  161 (166)
T cd00877         158 LLGN  161 (166)
T ss_pred             HHhc
Confidence            8653

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

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=2e-32  Score=194.10  Aligned_cols=161  Identities=86%  Similarity=1.238  Sum_probs=147.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||+..+..++..+++.+|++|+||
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999998888888888888888888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |+++++++..+..|+..+......+.|+++++||+|+.+.......+....+...++.++++|++++.|++++|+++.+.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            99999999999999999877665579999999999997777777888888888889999999999999999999999875


Q ss_pred             c
Q 028507          170 L  170 (208)
Q Consensus       170 ~  170 (208)
                      +
T Consensus       161 l  161 (161)
T cd01861         161 L  161 (161)
T ss_pred             C
Confidence            3

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=1.2e-32  Score=197.84  Aligned_cols=159  Identities=31%  Similarity=0.509  Sum_probs=138.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||||+++|..+.+...+.|+.+..+. ..+.+++..+.+.|||++|++++..++..+++++|++|+||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~   80 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCF   80 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEE
Confidence            79999999999999999999999998888888875553 34567788899999999999999998988999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcC-CeEEEeecCC
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELN-VMFIETSAKA  155 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~~  155 (208)
                      |++++++++.+. .|+..+.... +++|+++|+||.|+.+.            +.+..++++.++...+ +.++++||++
T Consensus        81 d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~t  159 (175)
T cd01874          81 SVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCC
Confidence            999999999986 5888887654 56999999999998653            4567788888888887 6999999999


Q ss_pred             CCChHHHHHHHHHHc
Q 028507          156 GFNIKPLFRKIAAAL  170 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~  170 (208)
                      |.|++++|+.++..+
T Consensus       160 g~~v~~~f~~~~~~~  174 (175)
T cd01874         160 QKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998743

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

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=2.1e-32  Score=194.51  Aligned_cols=161  Identities=36%  Similarity=0.585  Sum_probs=141.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+++|.+|+|||||++++..+.+...+.++.+ +.....+.+++..+.+.|||++|++++..++..+++++|++|+|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            48999999999999999999999998777777664 45556777788888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ||++++.++..+..|+..+..... .++|+++|+||+|+.+...+...+...++...+.+++++||+++.|+.++|.+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999998877543 6799999999999977666666777888888888999999999999999999998


Q ss_pred             HHc
Q 028507          168 AAL  170 (208)
Q Consensus       168 ~~~  170 (208)
                      +.+
T Consensus       160 ~~l  162 (163)
T cd04176         160 RQM  162 (163)
T ss_pred             Hhc
Confidence            765

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=2.6e-32  Score=194.43  Aligned_cols=160  Identities=33%  Similarity=0.515  Sum_probs=139.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|.+|+|||||+++++++.+...+.++.+..+ ......+...+.+.+||++|++++..+...++..+|++|+|
T Consensus         1 ~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   79 (165)
T cd04140           1 DYRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILV   79 (165)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEE
Confidence            37999999999999999999999998777777765333 44555667778999999999999998888889999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG---SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~---~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      ||++++++++.+..|+..+.....   +++|+++|+||+|+.+.+.+...++..++...++.++++||++|.|++++|++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~  159 (165)
T cd04140          80 YSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQE  159 (165)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHH
Confidence            999999999999999888876543   56999999999999776777777888888888899999999999999999999


Q ss_pred             HHHH
Q 028507          166 IAAA  169 (208)
Q Consensus       166 l~~~  169 (208)
                      |+.+
T Consensus       160 l~~~  163 (165)
T cd04140         160 LLNL  163 (165)
T ss_pred             HHhc
Confidence            9864

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=6.1e-32  Score=192.03  Aligned_cols=162  Identities=48%  Similarity=0.837  Sum_probs=147.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+++|++|+|||||+++|.++.+.....++.+..+....+.+++..+.+.+||+||++++...+..+++++|++|+|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            48999999999999999999999998777778887777777888888889999999999999988888899999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||+++++++.....|+..+.....+.+|+++++||+|+.+.......+...++...++.++++|+++|.|+.++|++|.+
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAK  160 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999998877677999999999998766677778888888888999999999999999999999998


Q ss_pred             Hc
Q 028507          169 AL  170 (208)
Q Consensus       169 ~~  170 (208)
                      .+
T Consensus       161 ~l  162 (163)
T cd01860         161 KL  162 (163)
T ss_pred             Hh
Confidence            76

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=4.4e-32  Score=194.19  Aligned_cols=163  Identities=37%  Similarity=0.641  Sum_probs=146.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh-hchhhhccCCcEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR-SLIPSYIRDSSVAV   86 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i   86 (208)
                      +.+||+++|++|+|||||+++++.+.+...+.++.+.+.....+.+++..+.+.+||++|++++. .++..+++++|++|
T Consensus         1 r~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i   80 (170)
T cd04115           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (170)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEE
Confidence            35899999999999999999999999888888888888888888888888999999999999886 56788899999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCC---CCChHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKA---GFNIKPL  162 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~~  162 (208)
                      +|||++++.++..+..|+..+.... ..++|+++|+||.|+...+++...+...++...+++++++||++   +.+++++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~  160 (170)
T cd04115          81 FVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAI  160 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHH
Confidence            9999999999999999999987764 35799999999999988888888888889988889999999999   8899999


Q ss_pred             HHHHHHHc
Q 028507          163 FRKIAAAL  170 (208)
Q Consensus       163 ~~~l~~~~  170 (208)
                      |..+.+.+
T Consensus       161 f~~l~~~~  168 (170)
T cd04115         161 FMTLAHKL  168 (170)
T ss_pred             HHHHHHHh
Confidence            99998765

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

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=6.8e-32  Score=193.14  Aligned_cols=163  Identities=39%  Similarity=0.623  Sum_probs=144.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +..+||+++|++|+|||||++++.++.+...+.++.+.+.....+.+++..+.+.|||+||++++..++..+++.+|++|
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i   82 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCL   82 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEE
Confidence            45699999999999999999999999998877788887777777888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKP  161 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~  161 (208)
                      +|||++++++++.+..|+..+.....    .++|+++|+||.|+. .+.....+++.++..++. +++++||++|.|+.+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~  161 (170)
T cd04116          83 LTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAA  161 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHH
Confidence            99999999999999999998876542    568999999999986 556677888889888885 899999999999999


Q ss_pred             HHHHHHHHc
Q 028507          162 LFRKIAAAL  170 (208)
Q Consensus       162 ~~~~l~~~~  170 (208)
                      +|+++++.+
T Consensus       162 ~~~~~~~~~  170 (170)
T cd04116         162 AFEEAVRRV  170 (170)
T ss_pred             HHHHHHhhC
Confidence            999998653

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=4.5e-32  Score=194.68  Aligned_cols=159  Identities=32%  Similarity=0.535  Sum_probs=138.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+++|.+|+|||||+.++..+.+...+.++.+ ......+.+++..+.+.||||+|++.+..++..+++++|++|+|
T Consensus         1 ~~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (174)
T cd01871           1 AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLIC   79 (174)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcce-eeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEE
Confidence            47999999999999999999999999888888875 44455667788889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEeecC
Q 028507           89 YDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIETSAK  154 (208)
Q Consensus        89 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~  154 (208)
                      ||++++++|+.+. .|+..+.... +++|+++|+||.|+.+.            +.+...++..++.+++. .++++||+
T Consensus        80 ~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  158 (174)
T cd01871          80 FSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  158 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeccc
Confidence            9999999999985 6888776654 57999999999998542            24778888999999885 99999999


Q ss_pred             CCCChHHHHHHHHHH
Q 028507          155 AGFNIKPLFRKIAAA  169 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~  169 (208)
                      +|.|++++|+.+++.
T Consensus       159 ~~~~i~~~f~~l~~~  173 (174)
T cd01871         159 TQKGLKTVFDEAIRA  173 (174)
T ss_pred             ccCCHHHHHHHHHHh
Confidence            999999999999864

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=3.3e-32  Score=193.60  Aligned_cols=161  Identities=37%  Similarity=0.587  Sum_probs=141.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+|+|++|+|||||+++|.++.+...+.++.+ +.......+++..+.+.+||+||++++..++..+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            5899999999999999999999888777666665 334556667787889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      |++++++++.+..|+..+..... .++|+++|+||+|+...+.....++..++...+.+++++||+++.|++++|++|.+
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  159 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHH
Confidence            99999999999999888866543 46899999999999776777778888888888999999999999999999999998


Q ss_pred             HcC
Q 028507          169 ALP  171 (208)
Q Consensus       169 ~~~  171 (208)
                      .+.
T Consensus       160 ~~~  162 (164)
T smart00173      160 EIR  162 (164)
T ss_pred             HHh
Confidence            664

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

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

Probab=100.00  E-value=5.6e-32  Score=192.35  Aligned_cols=162  Identities=33%  Similarity=0.552  Sum_probs=141.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.+||+++|++|+|||||++++.++.+...+.++.+.. ......+++..+.+.+||+||++++..++..+++++|++++
T Consensus         1 ~~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~il   79 (164)
T cd04145           1 PTYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLL   79 (164)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEE
Confidence            35899999999999999999999988877766666533 34456677878899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      |||++++.+++.+..|+..+.... ..++|+++++||+|+.........+...++..++++++++||++|.|++++|++|
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  159 (164)
T cd04145          80 VFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDL  159 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHH
Confidence            999999999999999999887653 3579999999999997766677778888888888999999999999999999999


Q ss_pred             HHHc
Q 028507          167 AAAL  170 (208)
Q Consensus       167 ~~~~  170 (208)
                      +..+
T Consensus       160 ~~~~  163 (164)
T cd04145         160 VRVI  163 (164)
T ss_pred             HHhh
Confidence            8765

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

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

Probab=100.00  E-value=2.7e-32  Score=180.41  Aligned_cols=202  Identities=32%  Similarity=0.594  Sum_probs=170.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ..-+|.+++|.-|+|||+|+.++...+|-.+-..++++++....+.+.+..+++.||||.|+++|+...+.+++++.+.+
T Consensus         9 syifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagal   88 (215)
T KOG0097|consen    9 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   88 (215)
T ss_pred             hheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhcccccee
Confidence            45689999999999999999999999998888889999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++.+.++..+..|+...+....++.-+++++||.|+...+.+..++++.|+.+.|+.++++|+++|.++++.|-.-
T Consensus        89 mvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~  168 (215)
T KOG0097|consen   89 MVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLET  168 (215)
T ss_pred             EEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHH
Confidence            99999999999999999999998888999999999999999999999999999999999999999999999999988666


Q ss_pred             HHHc-CCCccccccccccccccccccccCC----CCCCCCCCCCCCC
Q 028507          167 AAAL-PGMETLSSTKQEEMVDVNLRSTTGN----ASQSQSQSSGCSC  208 (208)
Q Consensus       167 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~c~~  208 (208)
                      ++.+ .+++..+..-.....-+..+...|.    .+-...++.+|.|
T Consensus       169 akkiyqniqdgsldlnaaesgvq~k~~~p~~~~l~se~~~~kd~c~c  215 (215)
T KOG0097|consen  169 AKKIYQNIQDGSLDLNAAESGVQHKPSQPSRTSLSSEATGAKDQCSC  215 (215)
T ss_pred             HHHHHHhhhcCcccccchhccCcCCCCCCCccccccCCCCccccCCC
Confidence            5555 3445444333222222223332222    2223456678988

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

Probab=100.00  E-value=7.3e-32  Score=191.19  Aligned_cols=160  Identities=31%  Similarity=0.548  Sum_probs=139.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+++|++|+|||||+++|.++.+...+.++.+.. ....+.+++..+.+.+||++|++++..++..++++++++++|
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v   79 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   79 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchhe-EEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEE
Confidence            4799999999999999999999998877777776643 355567777778899999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ||++++.++..+..|+..+..... .++|+++|+||+|+.+ +.....+...++...+++++++||++|.|++++|++|+
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (162)
T cd04138          80 FAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLV  158 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999998877653 5799999999999865 44556777788888899999999999999999999998


Q ss_pred             HHc
Q 028507          168 AAL  170 (208)
Q Consensus       168 ~~~  170 (208)
                      +.+
T Consensus       159 ~~~  161 (162)
T cd04138         159 REI  161 (162)
T ss_pred             HHh
Confidence            764

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.

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

Probab=100.00  E-value=3.3e-33  Score=187.84  Aligned_cols=164  Identities=41%  Similarity=0.703  Sum_probs=150.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .-++|++++|..=+|||+|+-++..++|.-....+.--.+..+.+.+.+....++||||+|+++|-.+-+-++++.++++
T Consensus        11 s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGal   90 (218)
T KOG0088|consen   11 SFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGAL   90 (218)
T ss_pred             ceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCceE
Confidence            34799999999999999999999999997776666655666677778888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++|.++|..++.|..+++...+..+-+++|+||+|+.+++.++..+++.++...|+.|+++||+++.||.++|+.|
T Consensus        91 LVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~L  170 (218)
T KOG0088|consen   91 LVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESL  170 (218)
T ss_pred             EEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHH
Confidence            99999999999999999999999999889999999999999999999999999999999999999999999999999987


Q ss_pred             HHHc
Q 028507          167 AAAL  170 (208)
Q Consensus       167 ~~~~  170 (208)
                      ...+
T Consensus       171 t~~M  174 (218)
T KOG0088|consen  171 TAKM  174 (218)
T ss_pred             HHHH
Confidence            6544

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=9.2e-32  Score=196.51  Aligned_cols=165  Identities=25%  Similarity=0.358  Sum_probs=137.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh--------chhhhccC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS--------LIPSYIRD   81 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~   81 (208)
                      +||+|+|.+|||||||+++|.++.+...+.++.+.+.....+.+++..+.+.||||||...+..        .....+..
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            6899999999999999999999999888888887666666677788888999999999654321        12334789


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-hcCCeEEEeecCCCC
Q 028507           82 SSVAVVVYDVASRQSFLNTSKWIDEVRTER---GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-ELNVMFIETSAKAGF  157 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~  157 (208)
                      +|++|+|||++++++++.+..|+..+....   ..++|+++|+||+|+...+....++.+.++. .++++++++||++|.
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~  160 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNW  160 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCC
Confidence            999999999999999999999999887764   3679999999999997766666666666654 568899999999999


Q ss_pred             ChHHHHHHHHHHcCCCc
Q 028507          158 NIKPLFRKIAAALPGME  174 (208)
Q Consensus       158 ~i~~~~~~l~~~~~~~~  174 (208)
                      |++++|+.++..+....
T Consensus       161 ~v~~lf~~i~~~~~~~~  177 (198)
T cd04142         161 HILLLFKELLISATTRG  177 (198)
T ss_pred             CHHHHHHHHHHHhhccC
Confidence            99999999998776443

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.

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=1.1e-31  Score=195.19  Aligned_cols=160  Identities=34%  Similarity=0.554  Sum_probs=137.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      .||+|+|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.|||++|++.+..++..++..+|++|+||
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~-~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~   79 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-VHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCF   79 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeee-EEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEE
Confidence            3899999999999999999999999888778776554 345566777889999999999999988888999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc------------CCCHHHHHHHHHhcC-CeEEEeecCC
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR------------QVSIEEGEAKSRELN-VMFIETSAKA  155 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~sa~~  155 (208)
                      |++++++|+.+. .|+..+.... ++.|+++|+||.|+.+.+            .+..++...++...+ +.++++||++
T Consensus        80 dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  158 (189)
T cd04134          80 SVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKL  158 (189)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCc
Confidence            999999999986 5888887654 579999999999996543            245666777887777 6899999999


Q ss_pred             CCChHHHHHHHHHHcC
Q 028507          156 GFNIKPLFRKIAAALP  171 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~  171 (208)
                      |.|++++|.+|++.+.
T Consensus       159 ~~~v~e~f~~l~~~~~  174 (189)
T cd04134         159 NRGVNEAFTEAARVAL  174 (189)
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999998885

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.

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=1.3e-31  Score=190.01  Aligned_cols=159  Identities=29%  Similarity=0.541  Sum_probs=137.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||||++++..+.+...+.++.+.+........++..+.+.+|||+|++.+..++..+++.+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999988777777776766667777888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |++++.+++.+..|+..+.... +++|+++|+||+|+...   ...+...++...+++++++||++|.|++++|+.+++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKL  156 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            9999999999999999997653 46999999999998432   1334455666778899999999999999999999987


Q ss_pred             cCC
Q 028507          170 LPG  172 (208)
Q Consensus       170 ~~~  172 (208)
                      +.+
T Consensus       157 ~~~  159 (161)
T cd04124         157 AVS  159 (161)
T ss_pred             HHh
Confidence            654

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=2.5e-31  Score=189.13  Aligned_cols=160  Identities=36%  Similarity=0.601  Sum_probs=140.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC--cCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD--KFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +||+++|++|+|||||+++|..+  .+...+.++.+.++......++ +..+.+.+||++|++.+..++..++..+|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999865  6777888888877766666664 56789999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||+++++++..+..|+..+.... .++|+++|+||.|+.+..++...+.+.++...+++++++|++++.|++++|+.|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESL  159 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHH
Confidence            9999999999999999999987765 569999999999997777777777777777888999999999999999999999


Q ss_pred             HHHc
Q 028507          167 AAAL  170 (208)
Q Consensus       167 ~~~~  170 (208)
                      .+.+
T Consensus       160 ~~~~  163 (164)
T cd04101         160 ARAF  163 (164)
T ss_pred             HHHh
Confidence            8875

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.

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=4.1e-31  Score=187.36  Aligned_cols=161  Identities=40%  Similarity=0.713  Sum_probs=143.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.++.+.....++.+.+.....+...+..+.+.+||++|++.+..++..+++.+|++++||
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            68999999999999999999999887766667666666666777777789999999999999999998999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |+++++++..+..|+..+......++|+++++||+|+...+.....+....+...+..++++|++++.|+.++|+++.+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~  160 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKR  160 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999988776679999999999998777777788888888889999999999999999999999876


Q ss_pred             c
Q 028507          170 L  170 (208)
Q Consensus       170 ~  170 (208)
                      +
T Consensus       161 ~  161 (162)
T cd04123         161 M  161 (162)
T ss_pred             h
Confidence            4

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

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

Probab=100.00  E-value=2.8e-31  Score=193.72  Aligned_cols=156  Identities=30%  Similarity=0.567  Sum_probs=139.0

Q ss_pred             EcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCCh
Q 028507           15 LGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASR   94 (208)
Q Consensus        15 vG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   94 (208)
                      +|.+|||||||+++++.+.+...+.++.+.+.....+.+++..+.+.|||++|++.|..++..+++++|++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999998888889988888888888888889999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507           95 QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus        95 ~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      .+++.+..|+..+.... .++|+++|+||+|+.. +.+.... ..++...++.++++||++|.|+.++|++|+..+.+.
T Consensus        81 ~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       81 VTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HHHHHHHHHHHHHHHhC-CCCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999998765 5799999999999854 3344443 467777889999999999999999999999988554

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=4.6e-31  Score=198.47  Aligned_cols=161  Identities=29%  Similarity=0.476  Sum_probs=140.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||||+++|+++.+...+.++.+ +.....+.+++..+.+.||||+|++.|..+...++..+|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            5899999999999999999999999877777775 555667788888899999999999999888888889999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHh---------cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-cCCeEEEeecCCCCCh
Q 028507           90 DVASRQSFLNTSKWIDEVRTE---------RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-LNVMFIETSAKAGFNI  159 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~---------~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i  159 (208)
                      |++++++|+.+..|+..+...         ...++|+++|+||+|+.+.+.+..+++..++.. .++.++++||+++.|+
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI  159 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNL  159 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCH
Confidence            999999999999999888654         225799999999999977677777887777654 4678999999999999


Q ss_pred             HHHHHHHHHHcC
Q 028507          160 KPLFRKIAAALP  171 (208)
Q Consensus       160 ~~~~~~l~~~~~  171 (208)
                      +++|++|...+.
T Consensus       160 ~elf~~L~~~~~  171 (247)
T cd04143         160 DEMFRALFSLAK  171 (247)
T ss_pred             HHHHHHHHHHhc
Confidence            999999998764

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=3.2e-31  Score=193.00  Aligned_cols=158  Identities=30%  Similarity=0.399  Sum_probs=129.2

Q ss_pred             ceeEEEEcCCCCCHHHHHH-HhhcCc-----CCCCCCCccce-eeEEEE--------EEECCEEEEEEEEEcCCchhhhh
Q 028507            9 KYKLVFLGDQSVGKTSIIT-RFMYDK-----FDNTYQATIGI-DFLSKT--------MYLEDRTVRLQLWDTAGQERFRS   73 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~-~l~~~~-----~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~i~D~~G~~~~~~   73 (208)
                      .+||+++|..|||||+|+. ++..+.     +...+.||.+. +.+...        ..+++..+.+.||||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            4899999999999999995 555443     34556677642 322222        25678889999999999875  2


Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCc-------------------ccCCC
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVE-------------------KRQVS  133 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~-------------------~~~~~  133 (208)
                      +...+++++|++|+|||++++++|+.+. .|+..+.... +++|+++|+||+|+.+                   .+.++
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            4556789999999999999999999996 5988887665 5789999999999864                   36788


Q ss_pred             HHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507          134 IEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      .++++.++++++++|++|||++|.|++++|+.+++.
T Consensus       159 ~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         159 PETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            899999999999999999999999999999999864

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.

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

Probab=100.00  E-value=2e-33  Score=189.08  Aligned_cols=174  Identities=36%  Similarity=0.563  Sum_probs=156.4

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC---------CEEEEEEEEEcCCchhh
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE---------DRTVRLQLWDTAGQERF   71 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~i~D~~G~~~~   71 (208)
                      |.......-+|.+.+|.+|+|||+|+.+++.++|......+.++++..+.+.++         +..+.+++|||+|+++|
T Consensus         1 m~~GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERF   80 (219)
T KOG0081|consen    1 MGDGDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERF   80 (219)
T ss_pred             CCCccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHH
Confidence            444555566789999999999999999999999999999999999888877664         34678999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEE
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIE  150 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  150 (208)
                      +++...+++.+.+++++||+++..+|.++..|+..+..+.- ++..|++++||.|+.+.++++.+++.+++.++|+|||+
T Consensus        81 RSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfE  160 (219)
T KOG0081|consen   81 RSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFE  160 (219)
T ss_pred             HHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeee
Confidence            99999999999999999999999999999999999977653 66779999999999999999999999999999999999


Q ss_pred             eecCCCCChHHHHHHHHHHcCCCc
Q 028507          151 TSAKAGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~~~~  174 (208)
                      +||-+|.|+++..+.|...+.+..
T Consensus       161 TSA~tg~Nv~kave~LldlvM~Ri  184 (219)
T KOG0081|consen  161 TSACTGTNVEKAVELLLDLVMKRI  184 (219)
T ss_pred             eccccCcCHHHHHHHHHHHHHHHH
Confidence            999999999999999988876443

>cd04177 RSR1 RSR1 subgroup

Probab=100.00  E-value=8.1e-31  Score=187.29  Aligned_cols=161  Identities=34%  Similarity=0.527  Sum_probs=141.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+++|++|+|||||++++.++.+...+.++.+. .....+..++..+.+.+||+||++.|..+++.+++.++++++|
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv   79 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIED-SYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLV   79 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchh-eEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEE
Confidence            479999999999999999999999887777777663 3456667788888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-CeEEEeecCCCCChHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      ||++++++++.+..|+..+.... ..+.|+++++||.|+.+.+....++...++..++ ++++++||+++.|++++|+++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i  159 (168)
T cd04177          80 YSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDL  159 (168)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHH
Confidence            99999999999999999887643 3579999999999998777777778888888887 799999999999999999999


Q ss_pred             HHHc
Q 028507          167 AAAL  170 (208)
Q Consensus       167 ~~~~  170 (208)
                      ...+
T Consensus       160 ~~~~  163 (168)
T cd04177         160 VRQI  163 (168)
T ss_pred             HHHH
Confidence            8755

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

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=1.5e-30  Score=184.49  Aligned_cols=160  Identities=43%  Similarity=0.745  Sum_probs=141.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.+..+.....++.+.++....+.+.+..+.+.+||+||++.+......+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999887777788877777777777787889999999999999988899999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      |++++.++..+..|+..+..... .++|+++|+||+|+. ......++...++...+++++++|+++|.|++++++.+.+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~  159 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE-NREVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVE  159 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc-ccccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHH
Confidence            99999999999999999887753 679999999999986 3445567788888888999999999999999999999987


Q ss_pred             Hc
Q 028507          169 AL  170 (208)
Q Consensus       169 ~~  170 (208)
                      .+
T Consensus       160 ~~  161 (161)
T cd01863         160 KI  161 (161)
T ss_pred             hC
Confidence            53

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

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=1.3e-30  Score=186.70  Aligned_cols=164  Identities=41%  Similarity=0.682  Sum_probs=144.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||++++.+..+.....++.+.++....+.+++..+.+.+||+||++.+..++..+++++|++|+||
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988777788777777777888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-CeEEEeecCCCCChHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~  164 (208)
                      |++++.+++.+..|+..+.....    .++|+++|+||+|+..+.....++...++...+ .+++++|+++|.|++++|+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  160 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFE  160 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHH
Confidence            99999999999888887765543    369999999999998666667788888888887 6999999999999999999


Q ss_pred             HHHHHcCCC
Q 028507          165 KIAAALPGM  173 (208)
Q Consensus       165 ~l~~~~~~~  173 (208)
                      ++.+.+.+.
T Consensus       161 ~i~~~~~~~  169 (172)
T cd01862         161 TIARKALEQ  169 (172)
T ss_pred             HHHHHHHhc
Confidence            999876543

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-

>cd04114 Rab30 Rab30 subfamily

Probab=100.00  E-value=3.4e-30  Score=184.14  Aligned_cols=163  Identities=40%  Similarity=0.695  Sum_probs=145.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..++|+++|++|+|||||++++..+.+.....++.+.+.....+.+.+..+.+.+||++|+..+......++..+|++++
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~   85 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALIL   85 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEE
Confidence            45999999999999999999999888877777888777777788888888899999999999999888899999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++.+++.+..|+..+.......+|+++|+||+|+.+.+++.......+.......++++|+++|.|++++|+++.
T Consensus        86 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~  165 (169)
T cd04114          86 TYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLA  165 (169)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999999988877666799999999999987777776666777777778999999999999999999998


Q ss_pred             HHc
Q 028507          168 AAL  170 (208)
Q Consensus       168 ~~~  170 (208)
                      +.+
T Consensus       166 ~~~  168 (169)
T cd04114         166 CRL  168 (169)
T ss_pred             HHh
Confidence            754

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.98  E-value=1.1e-30  Score=184.49  Aligned_cols=153  Identities=18%  Similarity=0.363  Sum_probs=129.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+.++..+.+...+.++. ..+ ...+.+++..+.+.+||++|.+.     ..+++.+|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~-~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPEG-GRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCCc-cce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            589999999999999999999988876654442 233 46678888888999999999864     24567899999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCc--ccCCCHHHHHHHHHhc-CCeEEEeecCCCCChHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVE--KRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~--~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |++++++|+.+..|+..+..... .++|+++|+||.|+..  .+.+..++++.+++.. ++.+++|||+++.||+++|..
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~  153 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQE  153 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHH
Confidence            99999999999999999987754 5689999999999853  5677888888888776 489999999999999999999


Q ss_pred             HHHH
Q 028507          166 IAAA  169 (208)
Q Consensus       166 l~~~  169 (208)
                      +++.
T Consensus       154 ~~~~  157 (158)
T cd04103         154 AAQK  157 (158)
T ss_pred             HHhh
Confidence            9865

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.

>cd00154 Rab Rab family

Probab=99.98  E-value=2e-30  Score=182.82  Aligned_cols=159  Identities=50%  Similarity=0.869  Sum_probs=145.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||++++.++.+...+.++.+.+.....+..++..+.+.+||+||+..+......+++++|++|+|+
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999998888888888888888888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      |+++++++..+..|+..+........|+++++||+|+..+......+...++...+.+++++|++++.|++++|++|.+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  159 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLAE  159 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHhC
Confidence            9999999999999999998877677999999999999756667788888888888999999999999999999999863

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.98  E-value=7.3e-31  Score=186.95  Aligned_cols=160  Identities=31%  Similarity=0.518  Sum_probs=136.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-hhhchhhhccCCcEEEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-FRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v~   89 (208)
                      ||+++|++|+|||||+++++.+.+...+.++.... ......+++..+.+.+||+||+.. +......+++.+|++|+||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESL-YSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHh-ceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            68999999999999999999988876666665433 345566788888999999999885 3445667889999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC-CChHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTER--GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG-FNIKPLFRKI  166 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~-~~i~~~~~~l  166 (208)
                      |++++++++.+..|+..+....  ..++|+++|+||+|+.+.+.+...++..++...+++++++|++++ .|++++|+.+
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l  159 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHEL  159 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHH
Confidence            9999999999999999887754  357999999999999777777888888899999999999999999 5999999999


Q ss_pred             HHHcC
Q 028507          167 AAALP  171 (208)
Q Consensus       167 ~~~~~  171 (208)
                      ++.+.
T Consensus       160 ~~~~~  164 (165)
T cd04146         160 CREVR  164 (165)
T ss_pred             HHHHh
Confidence            87653

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

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

Probab=99.98  E-value=1.2e-30  Score=187.38  Aligned_cols=158  Identities=34%  Similarity=0.549  Sum_probs=136.6

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeC
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDV   91 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   91 (208)
                      |+|+|++|+|||||+++|.++.+...+.++.... ....+..++..+.+.+|||+|++.+..+...++.++|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFEN-YSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEee-eeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            5899999999999999999999988777776543 345667788888999999999999999999999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc------------CCCHHHHHHHHHhcCC-eEEEeecCCCC
Q 028507           92 ASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR------------QVSIEEGEAKSRELNV-MFIETSAKAGF  157 (208)
Q Consensus        92 ~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~sa~~~~  157 (208)
                      +++++++.+. .|+..+.... +++|+++|+||.|+.+..            .+...++..++...+. .++++||+++.
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  158 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQE  158 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCC
Confidence            9999999985 5888887654 579999999999986532            3667788889999987 99999999999


Q ss_pred             ChHHHHHHHHHHcC
Q 028507          158 NIKPLFRKIAAALP  171 (208)
Q Consensus       158 ~i~~~~~~l~~~~~  171 (208)
                      |++++|+.+++.+.
T Consensus       159 ~v~~lf~~l~~~~~  172 (174)
T smart00174      159 GVREVFEEAIRAAL  172 (174)
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999998763

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

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

Probab=99.98  E-value=4.6e-33  Score=182.14  Aligned_cols=170  Identities=39%  Similarity=0.702  Sum_probs=156.8

Q ss_pred             EEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeC
Q 028507           13 VFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDV   91 (208)
Q Consensus        13 ~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   91 (208)
                      +++|.+++|||+|+-++..+.| .....++.++++.-+.+..++..+++++|||.|+++|++....+++.+|+++++||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            3789999999999999887776 456678899999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507           92 ASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus        92 ~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ++..+|++.+.|+.+|..+....+.+.+++||+|+..++.+..++.+.++..+++|++++|+++|.|++-.|-.|++.+.
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~  160 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELK  160 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHH
Confidence            99999999999999999998888999999999999998999999999999999999999999999999999999999888


Q ss_pred             CCccccccccc
Q 028507          172 GMETLSSTKQE  182 (208)
Q Consensus       172 ~~~~~~~~~~~  182 (208)
                      ...-+.++...
T Consensus       161 k~~~~~~~~~~  171 (192)
T KOG0083|consen  161 KLKMGAPPEGE  171 (192)
T ss_pred             HhccCCCCCCc
Confidence            77766655544

>cd04148 RGK RGK subfamily

Probab=99.98  E-value=2.2e-30  Score=192.46  Aligned_cols=160  Identities=34%  Similarity=0.482  Sum_probs=137.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc-CCcEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR-DSSVAVV   87 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~d~~i~   87 (208)
                      +||+++|++|+|||||+++|..+.+. ..+.++.+.+.....+.+++..+.+.+||++|++.  .....++. ++|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEE
Confidence            58999999999999999999988886 55666665566677778888888999999999872  23344556 8999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      |||++++.+++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||+++.|++++|+++
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l  158 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGI  158 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            999999999999999999887654 2579999999999998777777788888888889999999999999999999999


Q ss_pred             HHHcC
Q 028507          167 AAALP  171 (208)
Q Consensus       167 ~~~~~  171 (208)
                      +..+.
T Consensus       159 ~~~~~  163 (221)
T cd04148         159 VRQIR  163 (221)
T ss_pred             HHHHH
Confidence            98885

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

>cd04135 Tc10 TC10 subfamily

Probab=99.98  E-value=3.7e-30  Score=184.80  Aligned_cols=159  Identities=29%  Similarity=0.518  Sum_probs=136.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|..+.+...+.++.. +.....+.+++..+.+.+||++|++.+..+...++..+|++|+||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            5899999999999999999999988776666654 344456777888888999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEeecCC
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIETSAKA  155 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~  155 (208)
                      |++++.+++.+. .|+..+... .+++|+++|+||+|+.+.            ..++.+++..++...++ .++++||++
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  158 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALT  158 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCc
Confidence            999999999985 677777655 577999999999998543            25667788888888886 899999999


Q ss_pred             CCChHHHHHHHHHHc
Q 028507          156 GFNIKPLFRKIAAAL  170 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~  170 (208)
                      |.|++++|+.++..+
T Consensus       159 ~~gi~~~f~~~~~~~  173 (174)
T cd04135         159 QKGLKTVFDEAILAI  173 (174)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998865

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd01892 Miro2 Miro2 subfamily

Probab=99.98  E-value=1.4e-30  Score=186.21  Aligned_cols=162  Identities=23%  Similarity=0.289  Sum_probs=138.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +-+||+++|.+|+|||||+++|+++.+. ..+.++.+..+....+.+++..+.+.+||++|.+.+..+...++.++|+++
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~l   82 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVAC   82 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEE
Confidence            4589999999999999999999999997 788888887777677778888888999999999999888888899999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++++++.+..|+..+...  .++|+++|+||+|+.+.......+...++..+++ .++++||+++.|++++|+.
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~  160 (169)
T cd01892          83 LVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTK  160 (169)
T ss_pred             EEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHH
Confidence            999999999999998888766332  3699999999999966554444455667777777 5799999999999999999


Q ss_pred             HHHHcC
Q 028507          166 IAAALP  171 (208)
Q Consensus       166 l~~~~~  171 (208)
                      |.+.+.
T Consensus       161 l~~~~~  166 (169)
T cd01892         161 LATAAQ  166 (169)
T ss_pred             HHHHhh
Confidence            998765

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.97  E-value=4.8e-30  Score=184.13  Aligned_cols=157  Identities=35%  Similarity=0.558  Sum_probs=136.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +|++++|++|+|||||++++.++.+...+.++. .+.....+.+++..+.+.+||++|++.+..++..+++++|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            589999999999999999999998887777765 3555566778888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCc------------ccCCCHHHHHHHHHhcCC-eEEEeecCC
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVE------------KRQVSIEEGEAKSRELNV-MFIETSAKA  155 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~  155 (208)
                      |++++.+++.+. .|+..+.... +++|+++++||.|+.+            .+.+..+++..++...+. .++++||++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~  158 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALT  158 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCC
Confidence            999999999974 6887777543 4699999999999864            346677888999999888 999999999


Q ss_pred             CCChHHHHHHHHH
Q 028507          156 GFNIKPLFRKIAA  168 (208)
Q Consensus       156 ~~~i~~~~~~l~~  168 (208)
                      |.|++++|+.++-
T Consensus       159 ~~~v~~lf~~~~~  171 (173)
T cd04130         159 QKNLKEVFDTAIL  171 (173)
T ss_pred             CCCHHHHHHHHHh
Confidence            9999999998764

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,

>cd00876 Ras Ras family

Probab=99.97  E-value=1.4e-29  Score=179.13  Aligned_cols=159  Identities=39%  Similarity=0.608  Sum_probs=141.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|++|+|||||++++++..+...+.++.. +.........+..+.+.+||+||+..+......++..+|++++|||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            689999999999999999998887777777766 5556667777777899999999999999989999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      +++++++..+..|+..+..... ..+|+++|+||+|+...+.....++..++..++++++++|++++.|++++|++|.+.
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            9999999999999998877665 679999999999998767777888888888888999999999999999999999875


Q ss_pred             c
Q 028507          170 L  170 (208)
Q Consensus       170 ~  170 (208)
                      +
T Consensus       160 i  160 (160)
T cd00876         160 I  160 (160)
T ss_pred             C
Confidence            3

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=1.8e-29  Score=179.26  Aligned_cols=161  Identities=33%  Similarity=0.560  Sum_probs=140.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||++++....+...+.++... ........++..+.+.+||+||+..+......+++.++++++||
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKAD-SYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchh-hEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            58999999999999999999999887777776653 33455667778889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      |++++.++..+..|+..+..... .++|+++|+||+|+.+.......+....+..++++++++|++++.|++++|+++.+
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  159 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHH
Confidence            99999999999999998877643 57999999999999775556677777888888899999999999999999999988


Q ss_pred             HcC
Q 028507          169 ALP  171 (208)
Q Consensus       169 ~~~  171 (208)
                      .+.
T Consensus       160 ~~~  162 (164)
T cd04139         160 EIR  162 (164)
T ss_pred             HHH
Confidence            764

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=2.1e-29  Score=184.49  Aligned_cols=164  Identities=31%  Similarity=0.489  Sum_probs=136.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|.+|+|||||+++|+++.+...+.++.. +.....+.+.+..+.+.+||++|+..+..+...++..+|++|+|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            689999999999999999999988776666654 4445567777777899999999999998888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCc-ccCCCHHHHHHHHH-hcCCeEEEeecCCCCChHHHHHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVE-KRQVSIEEGEAKSR-ELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ++++.+++.+..|+..+..... .++|+++|+||+|+.. .+.+...+...... ..+..++++||++|.|++++|++|+
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  159 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELL  159 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999998877654 5799999999999865 34454544444433 4467899999999999999999999


Q ss_pred             HHcCCCcc
Q 028507          168 AALPGMET  175 (208)
Q Consensus       168 ~~~~~~~~  175 (208)
                      +.+.....
T Consensus       160 ~~~~~~~~  167 (198)
T cd04147         160 RQANLPYN  167 (198)
T ss_pred             HHhhcccc
Confidence            98764433

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.

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

Probab=99.97  E-value=1e-29  Score=184.22  Aligned_cols=164  Identities=37%  Similarity=0.600  Sum_probs=153.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+++|.+|+|||+|..++.++.|...+.|+.+ +.+...+.+++..+.+.|+||+|++++..+...++..+|++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            579999999999999999999999999999999998 7778888889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      ||+++++.||+.+..+++.|....+ ..+|+++|+||+|+...+.+..++.+.++..++++++|+||+.+.+++++|..|
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L  160 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYEL  160 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHH
Confidence            9999999999999999999955444 668999999999999889999999999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      ...+..
T Consensus       161 ~r~~~~  166 (196)
T KOG0395|consen  161 VREIRL  166 (196)
T ss_pred             HHHHHh
Confidence            998765

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

Probab=99.97  E-value=5.1e-29  Score=179.85  Aligned_cols=164  Identities=35%  Similarity=0.505  Sum_probs=140.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      .||+|+|++|+|||||+++|....+.....++..... ......++..+.+.+||+||++++...+..++..++++++||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            6899999999999999999999888776667665433 455566777788999999999999988888999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      |+++..+++.+..|+..+..... .+.|+++++||+|+...+.....+...++..++.+++++|++++.|+.++|+++.+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  160 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIE  160 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999888876543 56899999999999766666666777778888899999999999999999999998


Q ss_pred             HcCCCc
Q 028507          169 ALPGME  174 (208)
Q Consensus       169 ~~~~~~  174 (208)
                      .+....
T Consensus       161 ~~~~~~  166 (180)
T cd04137         161 EIEKVE  166 (180)
T ss_pred             HHHHhc
Confidence            885443

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=1.7e-29  Score=180.33  Aligned_cols=155  Identities=21%  Similarity=0.340  Sum_probs=123.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+++|++|+|||||+++|..+.+.. +.++.+.+..  .+..  ..+.+.+||++|++.+..++..++.++|++|
T Consensus         7 ~~~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii   81 (168)
T cd04149           7 NKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE--TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   81 (168)
T ss_pred             CCccEEEEECcCCCCHHHHHHHHccCCCcc-ccCCcccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            467999999999999999999999877643 4566665543  2233  3478999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----cCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----LNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++.++..+..|+..+.... ..++|+++|+||+|+.+.  ...+++..++..     ..+.++++||++|.|+.
T Consensus        82 ~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~  159 (168)
T cd04149          82 FVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLY  159 (168)
T ss_pred             EEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChH
Confidence            9999999999999888777765432 256899999999998542  345666555432     23478999999999999


Q ss_pred             HHHHHHHH
Q 028507          161 PLFRKIAA  168 (208)
Q Consensus       161 ~~~~~l~~  168 (208)
                      ++|++|.+
T Consensus       160 ~~~~~l~~  167 (168)
T cd04149         160 EGLTWLSS  167 (168)
T ss_pred             HHHHHHhc
Confidence            99999864

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=1.5e-28  Score=182.19  Aligned_cols=172  Identities=30%  Similarity=0.565  Sum_probs=148.9

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |.....+..+||+++|++|+|||||++++..+.+...+.++.+.++....+..+++.+.+.+||++|++.+..++..++.
T Consensus         1 ~~~~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~   80 (215)
T PTZ00132          1 MQQMDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYI   80 (215)
T ss_pred             CccccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhc
Confidence            56677788899999999999999999999988888888899988888888878888899999999999999888888899


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      .++++|+|||+++..++..+..|+..+.... .++|+++++||+|+.+. .... +...++...++.++++|++++.|++
T Consensus        81 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~~-~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~  157 (215)
T PTZ00132         81 KGQCAIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKDR-QVKA-RQITFHRKKNLQYYDISAKSNYNFE  157 (215)
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCccc-cCCH-HHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999999999999987664 56999999999998543 3333 3345667778899999999999999


Q ss_pred             HHHHHHHHHcCCCcc
Q 028507          161 PLFRKIAAALPGMET  175 (208)
Q Consensus       161 ~~~~~l~~~~~~~~~  175 (208)
                      +.|.+|++.+...+.
T Consensus       158 ~~f~~ia~~l~~~p~  172 (215)
T PTZ00132        158 KPFLWLARRLTNDPN  172 (215)
T ss_pred             HHHHHHHHHHhhccc
Confidence            999999998865433

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.97  E-value=1.2e-28  Score=177.14  Aligned_cols=159  Identities=33%  Similarity=0.546  Sum_probs=133.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      .||+|+|++|+|||||+++|..+.+...+.++.+... ...+.+++..+.+.+|||+|++.+..+...++.++|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            6899999999999999999999998877777776443 345677788889999999999999888888899999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEeecCC
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIETSAKA  155 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~  155 (208)
                      |++++++++.+. .|+..+.... .++|+++|+||.|+.+.            ..+...+.+.++...+. .++++||++
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  159 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEecccc
Confidence            999999998885 5777776543 56999999999998643            23445667777777775 899999999


Q ss_pred             CCChHHHHHHHHHHc
Q 028507          156 GFNIKPLFRKIAAAL  170 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~  170 (208)
                      |.|++++|+++.+.+
T Consensus       160 ~~~v~~lf~~l~~~~  174 (175)
T cd01870         160 KEGVREVFEMATRAA  174 (175)
T ss_pred             CcCHHHHHHHHHHHh
Confidence            999999999998764

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.97  E-value=1.2e-28  Score=178.88  Aligned_cols=160  Identities=33%  Similarity=0.572  Sum_probs=134.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      .||+|+|++|+|||||+++|..+.+...+.++....+ ...+..++..+.+.+||++|++.+......++..+|+++++|
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            6999999999999999999998888776666654333 345666777788999999999888777777789999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCc----------ccCCCHHHHHHHHHhcCC-eEEEeecCCCC
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVE----------KRQVSIEEGEAKSRELNV-MFIETSAKAGF  157 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~----------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~  157 (208)
                      |++++++++.+. .|+..+.... +++|+++|+||+|+.+          .+....++...++...+. .++++||++|.
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  159 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGE  159 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCC
Confidence            999999999986 6888887654 4699999999999854          234556778888888885 89999999999


Q ss_pred             ChHHHHHHHHHHcC
Q 028507          158 NIKPLFRKIAAALP  171 (208)
Q Consensus       158 ~i~~~~~~l~~~~~  171 (208)
                      |++++|+++.+.+.
T Consensus       160 ~v~~~f~~l~~~~~  173 (187)
T cd04129         160 GVDDVFEAATRAAL  173 (187)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998773

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).

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=8e-30  Score=181.36  Aligned_cols=153  Identities=20%  Similarity=0.277  Sum_probs=125.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      .|+++|++|+|||||+++|.++.+...+.++.+...  .  .++...+.+.+||++|++.+..++..+++++|++|+|||
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~--~--~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   76 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS--V--AIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVD   76 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccccCCcce--E--EEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEE
Confidence            379999999999999999999888777778776543  2  233445789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH----HHHHHHHHhcCCeEEEeecCC------CCChH
Q 028507           91 VASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI----EEGEAKSRELNVMFIETSAKA------GFNIK  160 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~----~~~~~~~~~~~~~~~~~sa~~------~~~i~  160 (208)
                      ++++.++.....|+..+.... .++|+++|+||.|+...+....    .+...++.+.++.++++||++      ++|++
T Consensus        77 ~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~  155 (164)
T cd04162          77 SADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVK  155 (164)
T ss_pred             CCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHH
Confidence            999999999888888886443 5799999999999866554321    223445566678899999998      99999


Q ss_pred             HHHHHHHH
Q 028507          161 PLFRKIAA  168 (208)
Q Consensus       161 ~~~~~l~~  168 (208)
                      ++|+.++.
T Consensus       156 ~~~~~~~~  163 (164)
T cd04162         156 DLLSQLIN  163 (164)
T ss_pred             HHHHHHhc
Confidence            99998864

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.

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

Probab=99.97  E-value=2.3e-29  Score=180.80  Aligned_cols=157  Identities=22%  Similarity=0.326  Sum_probs=123.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+++||+++|.+|+|||||++++..+.+. .+.++.+.+..  .....  .+.+.+||++|++.+..++..+++++|++|
T Consensus        11 ~~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii   85 (175)
T smart00177       11 NKEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTYK--NISFTVWDVGGQDKIRPLWRHYYTNTQGLI   85 (175)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCEEE
Confidence            45799999999999999999999877764 45666665543  23333  478999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++++++....++..+.... ..++|++||+||.|+.+..  ...+......     ...+.++++||++|.|+.
T Consensus        86 ~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~  163 (175)
T smart00177       86 FVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLY  163 (175)
T ss_pred             EEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHH
Confidence            9999999999999888888775432 2568999999999986432  2333332221     123357789999999999


Q ss_pred             HHHHHHHHHc
Q 028507          161 PLFRKIAAAL  170 (208)
Q Consensus       161 ~~~~~l~~~~  170 (208)
                      ++|++|.+.+
T Consensus       164 e~~~~l~~~~  173 (175)
T smart00177      164 EGLTWLSNNL  173 (175)
T ss_pred             HHHHHHHHHh
Confidence            9999998765

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=1.3e-28  Score=177.77  Aligned_cols=159  Identities=19%  Similarity=0.327  Sum_probs=123.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+++||+++|.+|||||||++++..+.+. .+.|+.+.+..  .+...  .+.+++||+||++.+..++..+++++|++|
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~~--~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI   89 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLI   89 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            45799999999999999999999987775 35677665543  33343  478999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-----CeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-----VMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~  160 (208)
                      +|||+++++++.....++..+... ..+++|++|++||+|+....  ..++.........     +.++++||++|+|+.
T Consensus        90 ~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~  167 (181)
T PLN00223         90 FVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLY  167 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCceEEEeccCCCCCCHH
Confidence            999999999998887777766432 22569999999999986543  3344333332211     246689999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|++|.+.+.+
T Consensus       168 e~~~~l~~~~~~  179 (181)
T PLN00223        168 EGLDWLSNNIAN  179 (181)
T ss_pred             HHHHHHHHHHhh
Confidence            999999887643

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=5e-29  Score=180.36  Aligned_cols=161  Identities=24%  Similarity=0.360  Sum_probs=127.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEE-CCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ..+||+++|.+|+|||||++++..+.+... .++.+.+.....+.. ++..+.+.+|||+|++.+..++..+++++|++|
T Consensus         2 ~~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii   80 (183)
T cd04152           2 QSLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIV   80 (183)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEE
Confidence            468999999999999999999998887644 566655554444443 335688999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH--h----cCCeEEEeecCCCCCh
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR--E----LNVMFIETSAKAGFNI  159 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~--~----~~~~~~~~sa~~~~~i  159 (208)
                      +|||+++++++..+..|+..+.... ..+.|+++|+||+|+.+.  ....+...+..  .    .+++++++||+++.|+
T Consensus        81 ~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi  158 (183)
T cd04152          81 FVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGL  158 (183)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCH
Confidence            9999999999988888887776543 256999999999998542  33344443332  1    1246899999999999


Q ss_pred             HHHHHHHHHHcC
Q 028507          160 KPLFRKIAAALP  171 (208)
Q Consensus       160 ~~~~~~l~~~~~  171 (208)
                      +++|++|.+.+.
T Consensus       159 ~~l~~~l~~~l~  170 (183)
T cd04152         159 QEGLEKLYEMIL  170 (183)
T ss_pred             HHHHHHHHHHHH
Confidence            999999998885

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=1.5e-28  Score=175.64  Aligned_cols=156  Identities=22%  Similarity=0.369  Sum_probs=125.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|.+|+|||||+++|.+..+.. +.+|.+....  .+...  .+.+.+||+||+..+...+..+++.+|++++|+|
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~~--~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEYK--NLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEEC--CEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            68999999999999999999887643 5666654443  33333  4789999999999999899999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC------CeEEEeecCCCCChHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN------VMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~------~~~~~~sa~~~~~i~~~~  163 (208)
                      ++++++++.+..|+..+.... ..+.|+++++||.|+.+  ....++++.++...+      +.++++||++|.|++++|
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f  153 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGL  153 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHH
Confidence            999999999999888886543 24589999999999854  345566666554322      368899999999999999


Q ss_pred             HHHHHHcCCC
Q 028507          164 RKIAAALPGM  173 (208)
Q Consensus       164 ~~l~~~~~~~  173 (208)
                      ++|.+.+.+.
T Consensus       154 ~~l~~~~~~~  163 (169)
T cd04158         154 DWLSRQLVAA  163 (169)
T ss_pred             HHHHHHHhhc
Confidence            9999877544

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.97  E-value=3.2e-28  Score=177.63  Aligned_cols=148  Identities=21%  Similarity=0.345  Sum_probs=126.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-----CEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-----DRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      +||+++|.+|+|||||++++..+.+...+.++.+.+.....+.++     +..+.+.|||++|++.|..+...+++++|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            589999999999999999999999988888888877766666553     467899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhc-------------------CCCCcEEEEEeCCCCCcccCCCHH----HHHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTER-------------------GSDVIIVLVGNKTDLVEKRQVSIE----EGEAKS  141 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-------------------~~~~piivv~nK~D~~~~~~~~~~----~~~~~~  141 (208)
                      +|+|||++++++++.+..|+..+....                   ..++|+++|+||.|+.+++.....    ....++
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia  160 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVA  160 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHH
Confidence            999999999999999999999997632                   246999999999999776554443    345668


Q ss_pred             HhcCCeEEEeecCCCC
Q 028507          142 RELNVMFIETSAKAGF  157 (208)
Q Consensus       142 ~~~~~~~~~~sa~~~~  157 (208)
                      .+.+++.++.++.+..
T Consensus       161 ~~~~~~~i~~~c~~~~  176 (202)
T cd04102         161 EQGNAEEINLNCTNGR  176 (202)
T ss_pred             HhcCCceEEEecCCcc
Confidence            8899999999988655

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.

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=3.3e-28  Score=174.07  Aligned_cols=157  Identities=36%  Similarity=0.584  Sum_probs=131.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.++.+...+.++.. +........++..+.+.+||+||++.+.......++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            5899999999999999999999998666666654 334455667788889999999999988888888889999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccC-----------CCHHHHHHHHHhcCC-eEEEeecCCC
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQ-----------VSIEEGEAKSRELNV-MFIETSAKAG  156 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~-----------~~~~~~~~~~~~~~~-~~~~~sa~~~  156 (208)
                      |++++.++.... .|+..+.... .++|+++|+||+|+.+...           +...+...++..+++ .++++|++++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQ  158 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCC
Confidence            999999988864 5666666544 4799999999999976542           346677778888887 9999999999


Q ss_pred             CChHHHHHHHHH
Q 028507          157 FNIKPLFRKIAA  168 (208)
Q Consensus       157 ~~i~~~~~~l~~  168 (208)
                      .|+.++|++|.+
T Consensus       159 ~gi~~l~~~i~~  170 (171)
T cd00157         159 EGVKEVFEEAIR  170 (171)
T ss_pred             CCHHHHHHHHhh
Confidence            999999999875

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.96  E-value=4.1e-29  Score=176.89  Aligned_cols=152  Identities=22%  Similarity=0.348  Sum_probs=118.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||||++++..+.+. .+.|+.+.+..  .+...  .+.+.+||++|++++..++..+++++|++|+||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999887775 45666665442  23333  478999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      |++++.+++....++..+... ...+.|+++++||+|+.+..  ...+......     ...+.++++||++|.|++++|
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~  153 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAM--SAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGL  153 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHH
Confidence            999999999988877776433 22468999999999985432  2223222221     123467899999999999999


Q ss_pred             HHHHH
Q 028507          164 RKIAA  168 (208)
Q Consensus       164 ~~l~~  168 (208)
                      ++|.+
T Consensus       154 ~~l~~  158 (159)
T cd04150         154 DWLSN  158 (159)
T ss_pred             HHHhc
Confidence            99864

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=3.7e-28  Score=174.30  Aligned_cols=155  Identities=23%  Similarity=0.346  Sum_probs=123.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +..++|+++|++|+|||||+++|.+..+ ....++.+..  ...+.+++  +.+.+||+||++.+..++..+++.+|+++
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~~d~~i   86 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQ--IKTLEYEG--YKLNIWDVGGQKTLRPYWRNYFESTDALI   86 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            5679999999999999999999997754 3445555433  33344443  77999999999998888899999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++.++.....|+..+... ...++|+++|+||+|+.+..  ..+++..++.     ..+++++++||++|.|++
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  164 (173)
T cd04154          87 WVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGLL  164 (173)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCHH
Confidence            999999999999888888877543 23579999999999986533  3445554443     235689999999999999


Q ss_pred             HHHHHHHH
Q 028507          161 PLFRKIAA  168 (208)
Q Consensus       161 ~~~~~l~~  168 (208)
                      ++|+++..
T Consensus       165 ~l~~~l~~  172 (173)
T cd04154         165 QGIDWLVD  172 (173)
T ss_pred             HHHHHHhc
Confidence            99999864

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.

>PTZ00099 rab6; Provisional

Probab=99.96  E-value=1.2e-27  Score=171.59  Aligned_cols=145  Identities=69%  Similarity=1.066  Sum_probs=130.9

Q ss_pred             CcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc
Q 028507           32 DKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER  111 (208)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~  111 (208)
                      +.|...+.+|.+.++....+.++++.+.+.||||+|++.+..++..+++++|++|+|||++++++|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45677888999989988888889999999999999999999999999999999999999999999999999999997766


Q ss_pred             CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcCCCccc
Q 028507          112 GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL  176 (208)
Q Consensus       112 ~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  176 (208)
                      ..++|+++|+||+|+.+.+.+...++..++..+++.++++||++|.|+.++|++|++.+++....
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~~~  147 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLDNS  147 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcccc
Confidence            66799999999999977777788888888888899999999999999999999999999765543

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=6.7e-28  Score=174.18  Aligned_cols=159  Identities=19%  Similarity=0.318  Sum_probs=122.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+++||+++|++|+|||||++++..+.+.. +.++.+.+..  .+...  .+.+.+||++|++.+..++..+++++|++|
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI   89 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEYK--NLKFTMWDVGGQDKLRPLWRHYYQNTNGLI   89 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            346999999999999999999998877754 5566665443  33333  478999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----cCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----LNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~  160 (208)
                      +|||+++++++.....++..+... ...++|++||+||.|+.+..  ...+.......     ..+.++++||++|.|+.
T Consensus        90 ~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~  167 (182)
T PTZ00133         90 FVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM--STTEVTEKLGLHSVRQRNWYIQGCCATTAQGLY  167 (182)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC--CHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHH
Confidence            999999999999888777776432 22458999999999985432  22333222211     12357799999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|++|.+.+.+
T Consensus       168 e~~~~l~~~i~~  179 (182)
T PTZ00133        168 EGLDWLSANIKK  179 (182)
T ss_pred             HHHHHHHHHHHH
Confidence            999999987643

>cd01893 Miro1 Miro1 subfamily

Probab=99.96  E-value=1.3e-27  Score=170.39  Aligned_cols=159  Identities=26%  Similarity=0.378  Sum_probs=123.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||||+++|..+.+...+..+.  +.......+++..+.+.+||++|...+...+..++..+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVL--PEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCcc--cceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            489999999999999999999998865533322  122333445667789999999999888777777789999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHHHHhcC--CeEEEeecCCCCChHHHHH
Q 028507           90 DVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAKSRELN--VMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        90 d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~  164 (208)
                      |++++++++.+. .|+..+.... .++|+++|+||+|+.+.....  ..+....+..++  ..++++||+++.|++++|+
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            999999999975 6777776654 479999999999997655421  233333333332  3899999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      .+...+.
T Consensus       158 ~~~~~~~  164 (166)
T cd01893         158 YAQKAVL  164 (166)
T ss_pred             HHHHHhc
Confidence            9988764

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.96  E-value=3.7e-27  Score=169.27  Aligned_cols=154  Identities=22%  Similarity=0.386  Sum_probs=120.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.++|+++|++|+|||||++++..+.+.. ..++.+.+.  .....+.  +.+.+||+||++.+...+..++.++|++|+
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~--~~~~~~~--~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~   88 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNV--EEIVYKN--IRFLMWDIGGQESLRSSWNTYYTNTDAVIL   88 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccce--EEEEECC--eEEEEEECCCCHHHHHHHHHHhhcCCEEEE
Confidence            46899999999999999999999887764 455555443  2334443  789999999999999989999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcCCeEEEeecCCCCChHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~  161 (208)
                      |+|+++++++.....++..+..... .++|+++++||+|+.+.  ...++.....     ...+++++++||++|.|+++
T Consensus        89 V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e  166 (174)
T cd04153          89 VIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPE  166 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHH
Confidence            9999999888887777777654432 46999999999998542  2333332222     23456799999999999999


Q ss_pred             HHHHHHH
Q 028507          162 LFRKIAA  168 (208)
Q Consensus       162 ~~~~l~~  168 (208)
                      +|++|.+
T Consensus       167 ~~~~l~~  173 (174)
T cd04153         167 GLDWIAS  173 (174)
T ss_pred             HHHHHhc
Confidence            9999975

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.

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

Probab=99.96  E-value=6.1e-28  Score=171.48  Aligned_cols=167  Identities=32%  Similarity=0.522  Sum_probs=149.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +..+|++|||..++|||+|+..+..+.|+..+.|+.- +-+...+.++ ++.+.+.+|||+|+++|..++...++++|++
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvf   80 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVF   80 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEE
Confidence            3568999999999999999999999999999999987 6667777884 9999999999999999999888889999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEe
Q 028507           86 VVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIET  151 (208)
Q Consensus        86 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  151 (208)
                      +++|++++|++++++ ..|+.++..++ +++|+++||+|.|+.+.            ..+..++....+++.|+ .|+++
T Consensus        81 l~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~Ec  159 (198)
T KOG0393|consen   81 LLCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLEC  159 (198)
T ss_pred             EEEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeee
Confidence            999999999999995 78999998777 78999999999999742            35778899999999995 89999


Q ss_pred             ecCCCCChHHHHHHHHHHcCCCcc
Q 028507          152 SAKAGFNIKPLFRKIAAALPGMET  175 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~~~~~~  175 (208)
                      ||++..|++++|+..+........
T Consensus       160 Sa~tq~~v~~vF~~a~~~~l~~~~  183 (198)
T KOG0393|consen  160 SALTQKGVKEVFDEAIRAALRPPQ  183 (198)
T ss_pred             hhhhhCCcHHHHHHHHHHHhcccc
Confidence            999999999999998888765544

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

Probab=99.96  E-value=1e-29  Score=174.46  Aligned_cols=169  Identities=36%  Similarity=0.567  Sum_probs=156.7

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCc
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      ..-..-+|++|+|..++||||+|++++.+-|-..+..+++.++......+.+..++..+||++|+++|......+++++.
T Consensus        15 ~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaq   94 (246)
T KOG4252|consen   15 TDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQ   94 (246)
T ss_pred             hhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhcccc
Confidence            33456799999999999999999999999998899999999888888888777788999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      +-++||+-+|..+|+.+..|++.+....+ .+|.++|-||+|+.+...+...+++..++.+.+.++.+|++...|+..+|
T Consensus        95 a~vLVFSTTDr~SFea~~~w~~kv~~e~~-~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF  173 (246)
T KOG4252|consen   95 ASVLVFSTTDRYSFEATLEWYNKVQKETE-RIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVF  173 (246)
T ss_pred             ceEEEEecccHHHHHHHHHHHHHHHHHhc-cCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHH
Confidence            99999999999999999999999988775 59999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028507          164 RKIAAALPGM  173 (208)
Q Consensus       164 ~~l~~~~~~~  173 (208)
                      .+|++.+...
T Consensus       174 ~YLaeK~~q~  183 (246)
T KOG4252|consen  174 AYLAEKLTQQ  183 (246)
T ss_pred             HHHHHHHHHH
Confidence            9999988544

>cd04157 Arl6 Arl6 subfamily

Probab=99.95  E-value=1.6e-27  Score=169.05  Aligned_cols=152  Identities=17%  Similarity=0.247  Sum_probs=117.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +|+++|++|+|||||+++|.+..+ ...+.++.+....  .+..  ..+.+.+||+||+..+..++..+++.+|++|+|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVE--SFEK--GNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceE--EEEE--CCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998763 4455666654332  2333  3478999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTER---GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~---~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~  161 (208)
                      |++++.++.....|+..+....   ..++|+++|+||+|+.+...  ..+......     ...+.++++||++|.|+++
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~--~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~  154 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALT--AVKITQLLGLENIKDKPWHIFASNALTGEGLDE  154 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCC--HHHHHHHhCCccccCceEEEEEeeCCCCCchHH
Confidence            9999999888888887775532   25799999999999865332  222222221     1234689999999999999


Q ss_pred             HHHHHHH
Q 028507          162 LFRKIAA  168 (208)
Q Consensus       162 ~~~~l~~  168 (208)
                      +|++|.+
T Consensus       155 ~~~~l~~  161 (162)
T cd04157         155 GVQWLQA  161 (162)
T ss_pred             HHHHHhc
Confidence            9999864

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.95  E-value=3.6e-27  Score=168.22  Aligned_cols=151  Identities=19%  Similarity=0.226  Sum_probs=119.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      +|+++|++|||||||+++|.++ +...+.++.+...  ..+...+  +.+.+||+||+..+..++..+++++|++|+|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~--~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTP--TKLRLDK--YEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceE--EEEEECC--EEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999976 6566677766542  3444443  789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHH------HHHHhc--CCeEEEeecCCC-----
Q 028507           91 VASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGE------AKSREL--NVMFIETSAKAG-----  156 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~------~~~~~~--~~~~~~~sa~~~-----  156 (208)
                      ++++.++..+..|+..+..... .++|+++|+||.|+...+.  ..+..      .++.+.  .+.++++||++|     
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~--~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~  153 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALL--GADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKI  153 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCC--HHHHHHhcCcccccCCCCceEEEEEeEceeCCCCcc
Confidence            9999999999999988876532 5699999999999865442  22221      222222  357888999998     


Q ss_pred             -CChHHHHHHHHH
Q 028507          157 -FNIKPLFRKIAA  168 (208)
Q Consensus       157 -~~i~~~~~~l~~  168 (208)
                       .|+.+.|+||..
T Consensus       154 ~~g~~~~~~wl~~  166 (167)
T cd04161         154 DPSIVEGLRWLLA  166 (167)
T ss_pred             ccCHHHHHHHHhc
Confidence             899999999964

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=1.3e-26  Score=168.64  Aligned_cols=157  Identities=22%  Similarity=0.321  Sum_probs=124.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|++|+|||||++++.++.+. .+.++.+..  ...+.+.+  +.+.+||+||+..+...+..+++.+|+++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~--~~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~ii   91 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPT--SEELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIV   91 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            46799999999999999999999987764 344554432  23444554  67999999999998888888999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHh----------------cCCeEE
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE----------------LNVMFI  149 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~----------------~~~~~~  149 (208)
                      +|+|+++++++.....++..+..... .+.|+++++||+|+..  .....+.+..+..                ....++
T Consensus        92 lV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (190)
T cd00879          92 FLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVF  169 (190)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEE
Confidence            99999999888888888887765432 5699999999999854  4455666655542                124689


Q ss_pred             EeecCCCCChHHHHHHHHHHc
Q 028507          150 ETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++||++|+|+.++|++|.+.+
T Consensus       170 ~~Sa~~~~gv~e~~~~l~~~~  190 (190)
T cd00879         170 MCSVVKRQGYGEAFRWLSQYL  190 (190)
T ss_pred             EeEecCCCChHHHHHHHHhhC
Confidence            999999999999999998753

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.95  E-value=4.7e-27  Score=166.39  Aligned_cols=152  Identities=25%  Similarity=0.424  Sum_probs=117.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      +|+++|++|+|||||+++|.++.+... .++.+.+.  ..+... ..+.+.+||++|+..+...+..++..+|++|+|+|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~-~~t~~~~~--~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT-IPTVGFNV--EMLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc-cCccCcce--EEEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            589999999999999999998887543 45555443  223332 34789999999999998888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHH------HHhcCCeEEEeecCCCCChHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAK------SRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~------~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      ++++.++.....|+..+..... .+.|+++|+||+|+....  ...+....      +...+++++++||++|.|++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  154 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGAL--TAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAF  154 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCc--CHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHH
Confidence            9999988988888887755432 569999999999985422  22333222      11234579999999999999999


Q ss_pred             HHHHH
Q 028507          164 RKIAA  168 (208)
Q Consensus       164 ~~l~~  168 (208)
                      ++|.+
T Consensus       155 ~~i~~  159 (160)
T cd04156         155 RKLAS  159 (160)
T ss_pred             HHHhc
Confidence            99864

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=1.3e-26  Score=165.28  Aligned_cols=152  Identities=23%  Similarity=0.397  Sum_probs=117.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      +|+++|++|+|||||+++|.+...      ...+.++.+...  ..+.+++  ..+.+||+||++.+..++..++..+|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNI--GTIEVGN--ARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccce--EEEEECC--EEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            689999999999999999986432      223344444443  3344443  689999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-------cCCeEEEeecCCC
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-------LNVMFIETSAKAG  156 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~sa~~~  156 (208)
                      +++|+|+++++++.....++..+.... ..++|+++++||+|+.+.  ....+...+...       .+++++++||++|
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  154 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEG  154 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCC
Confidence            999999999888888888887775543 256999999999998553  333444444332       2458999999999


Q ss_pred             CChHHHHHHHHH
Q 028507          157 FNIKPLFRKIAA  168 (208)
Q Consensus       157 ~~i~~~~~~l~~  168 (208)
                      .|+++++++|.+
T Consensus       155 ~gv~e~~~~l~~  166 (167)
T cd04160         155 TGVREGIEWLVE  166 (167)
T ss_pred             cCHHHHHHHHhc
Confidence            999999999865

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=1.9e-26  Score=176.21  Aligned_cols=141  Identities=21%  Similarity=0.373  Sum_probs=122.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-------------CEEEEEEEEEcCCchhhh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-------------DRTVRLQLWDTAGQERFR   72 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~i~D~~G~~~~~   72 (208)
                      ....+||+|+|..|||||||+++|..+.+...+.++.+.++....+.++             +..+.+.|||++|++.|.
T Consensus        18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfr   97 (334)
T PLN00023         18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYK   97 (334)
T ss_pred             CccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhh
Confidence            4578999999999999999999999999988888998888776666654             246889999999999999


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC------------CCCcEEEEEeCCCCCccc---C---CCH
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG------------SDVIIVLVGNKTDLVEKR---Q---VSI  134 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~------------~~~piivv~nK~D~~~~~---~---~~~  134 (208)
                      .++..++++++++|+|||++++.+++.+..|+..+.....            .++|++||+||+|+.+.+   .   ...
T Consensus        98 sL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~  177 (334)
T PLN00023         98 DCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLV  177 (334)
T ss_pred             hhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccH
Confidence            9999999999999999999999999999999999987632            358999999999996543   2   357


Q ss_pred             HHHHHHHHhcCC
Q 028507          135 EEGEAKSRELNV  146 (208)
Q Consensus       135 ~~~~~~~~~~~~  146 (208)
                      ++++.++...++
T Consensus       178 e~a~~~A~~~g~  189 (334)
T PLN00023        178 DAARQWVEKQGL  189 (334)
T ss_pred             HHHHHHHHHcCC
Confidence            899999999875

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

Probab=99.95  E-value=9.4e-27  Score=164.55  Aligned_cols=151  Identities=23%  Similarity=0.333  Sum_probs=119.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|.+|+|||||++++.+..+ ....++.+...  ..+.+..  +.+.+||+||+..+...+..++..+|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNV--ETVEYKN--VSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcce--EEEEECC--EEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            689999999999999999998874 34445554433  3333443  679999999999999899999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChHHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +++++++.....++..+.... ..+.|+++++||+|+....  ..++......     ...++++++|+++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~  153 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHH
Confidence            999999999888888776543 3579999999999986543  2333333332     2345899999999999999999


Q ss_pred             HHHH
Q 028507          165 KIAA  168 (208)
Q Consensus       165 ~l~~  168 (208)
                      +|..
T Consensus       154 ~l~~  157 (158)
T cd00878         154 WLLQ  157 (158)
T ss_pred             HHhh
Confidence            9875

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.95  E-value=2.3e-26  Score=162.61  Aligned_cols=151  Identities=21%  Similarity=0.319  Sum_probs=113.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|++++|||||+++|..+.+.. ..++.+.+..  .+...  .+.+.+||+||+..+..++..++..+|++|+|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TVTYK--NLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            68999999999999999998777643 3455444432  33333  3689999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChHHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRT-ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~-~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      ++++.++.....++..+.. ....++|+++|+||+|+.+..  ...+......     ..+++++++||+++.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  153 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHH
Confidence            9998887776666655433 222469999999999986433  2223222211     1234799999999999999999


Q ss_pred             HHHH
Q 028507          165 KIAA  168 (208)
Q Consensus       165 ~l~~  168 (208)
                      +|.+
T Consensus       154 ~l~~  157 (158)
T cd04151         154 WLVN  157 (158)
T ss_pred             HHhc
Confidence            9975

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.

>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=99.94  E-value=1.2e-25  Score=161.39  Aligned_cols=157  Identities=24%  Similarity=0.360  Sum_probs=125.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .++++|+++|+.|+|||||++++..+.... ..||.+..  ...+...+  +.+.+||.+|+..++..|+.++.++|++|
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g~~--~~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~iI   86 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIGFN--IEEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGII   86 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESSEE--EEEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccc-cCcccccc--cceeeeCc--EEEEEEeccccccccccceeeccccceeE
Confidence            678999999999999999999998765433 55665544  34455565  67999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh------cCCeEEEeecCCCCCh
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE------LNVMFIETSAKAGFNI  159 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~------~~~~~~~~sa~~~~~i  159 (208)
                      ||+|+++++.+......+..+.... ..++|++|++||.|+.+.  ...+++......      ..+.++.+|+.+|+|+
T Consensus        87 fVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv  164 (175)
T PF00025_consen   87 FVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGV  164 (175)
T ss_dssp             EEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTH
T ss_pred             EEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccCCcCH
Confidence            9999999988888877777765532 257999999999998653  344555544332      2357999999999999


Q ss_pred             HHHHHHHHHHc
Q 028507          160 KPLFRKIAAAL  170 (208)
Q Consensus       160 ~~~~~~l~~~~  170 (208)
                      .+.++||.+.+
T Consensus       165 ~e~l~WL~~~~  175 (175)
T PF00025_consen  165 DEGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC
Confidence            99999998763

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 ....

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

Probab=99.94  E-value=1.6e-25  Score=162.17  Aligned_cols=156  Identities=19%  Similarity=0.262  Sum_probs=120.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|.+|+|||||++++.++.+.. +.++.+.+  ...+.+.+  +++.+||+||+..+...+..++.++|++|
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~--~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPT--SEELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccccc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            456999999999999999999999877643 34444332  23334444  67999999999999989999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh------------cCCeEEEeec
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE------------LNVMFIETSA  153 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~sa  153 (208)
                      +|+|+++++++.....++..+.... ..++|+++|+||+|+..  ..+.+++......            ....++++||
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa  167 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSV  167 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeec
Confidence            9999999998888877777765432 25689999999999853  3445555444321            1236999999


Q ss_pred             CCCCChHHHHHHHHHH
Q 028507          154 KAGFNIKPLFRKIAAA  169 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~  169 (208)
                      +++.|++++++||...
T Consensus       168 ~~~~g~~~~~~wl~~~  183 (184)
T smart00178      168 VRRMGYGEGFKWLSQY  183 (184)
T ss_pred             ccCCChHHHHHHHHhh
Confidence            9999999999999865

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

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

Probab=99.94  E-value=1.7e-25  Score=159.60  Aligned_cols=156  Identities=17%  Similarity=0.163  Sum_probs=109.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh---------hchhhhcc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR---------SLIPSYIR   80 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~   80 (208)
                      .+|+++|.+|+|||||+++|.+..+.....+..+.+........+  .+++.||||||+....         ........
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~   78 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYK--YLRWQVIDTPGLLDRPLEERNTIEMQAITALAH   78 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEccC--ceEEEEEECCCcCCccccCCchHHHHHHHHHHh
Confidence            379999999999999999999887754333333333333333333  3789999999974211         00111123


Q ss_pred             CCcEEEEEEeCCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           81 DSSVAVVVYDVASRQS--FLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      ..|++|+|+|++++.+  ++....|+..+.... .+.|+++|+||+|+.+......  ...+....+.+++++||++|.|
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~g  155 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEG  155 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCC
Confidence            3689999999997654  355567777776543 3699999999999976544322  4445555567899999999999


Q ss_pred             hHHHHHHHHHHc
Q 028507          159 IKPLFRKIAAAL  170 (208)
Q Consensus       159 i~~~~~~l~~~~  170 (208)
                      ++++|+++.+.+
T Consensus       156 i~~l~~~l~~~~  167 (168)
T cd01897         156 VDEVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998875

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.94  E-value=1.7e-25  Score=174.52  Aligned_cols=162  Identities=15%  Similarity=0.130  Sum_probs=124.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchhhhccCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIPSYIRDS   82 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~   82 (208)
                      -.|+|||.||||||||+++|+..+......+.++.......+.+.+ ...+.+||+||..+       +...+..++..+
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~-~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a  237 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDD-YKSFVIADIPGLIEGASEGAGLGHRFLKHIERT  237 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCC-CcEEEEEeCCCccCCCCccccHHHHHHHHhhhc
Confidence            3589999999999999999998765444445555565555555532 24699999999642       222334456789


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      +++|+|+|++++++++.+..|..++..+..  .++|+++|+||+|+.+.........+.++...+++++++||+++.|++
T Consensus       238 ~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~  317 (335)
T PRK12299        238 RLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLD  317 (335)
T ss_pred             CEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHH
Confidence            999999999988788999999998877643  468999999999997655444444555556667899999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      +++++|.+.+.+
T Consensus       318 eL~~~L~~~l~~  329 (335)
T PRK12299        318 ELLRALWELLEE  329 (335)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.94  E-value=3.1e-25  Score=156.37  Aligned_cols=152  Identities=24%  Similarity=0.376  Sum_probs=120.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      .|+++|++|+|||||+++|.+..+...+.++.+.....  +...+  +.+.+||+||+..+...+..++..+|++++|+|
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d   76 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVD   76 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEE
Confidence            37999999999999999999999888888877765543  33333  789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcCCeEEEeecCCCCChHHHHH
Q 028507           91 VASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +++++++.....++..+.... ..++|+++|+||.|+.+...  ..+.....     ....++++++|++++.|++++++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  154 (159)
T cd04159          77 AADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLD  154 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEEEEeccCCChHHHHH
Confidence            999988888877777765432 25689999999999865432  22222121     12235889999999999999999


Q ss_pred             HHHH
Q 028507          165 KIAA  168 (208)
Q Consensus       165 ~l~~  168 (208)
                      +|.+
T Consensus       155 ~l~~  158 (159)
T cd04159         155 WLIK  158 (159)
T ss_pred             HHhh
Confidence            9975

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.

>cd01890 LepA LepA subfamily

Probab=99.94  E-value=4.8e-25  Score=158.90  Aligned_cols=155  Identities=18%  Similarity=0.254  Sum_probs=111.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc-------CCCCCCC------ccceeeEEE--EEEE---CCEEEEEEEEEcCCchhhh
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK-------FDNTYQA------TIGIDFLSK--TMYL---EDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~-------~~~~~~~------~~~~~~~~~--~~~~---~~~~~~~~i~D~~G~~~~~   72 (208)
                      +|+++|++++|||||+++|++..       +...+.+      ..+.+....  .+.+   ++..+.+.+|||||++++.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            79999999999999999998642       1111111      112222222  2222   5567889999999999999


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC---eEE
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV---MFI  149 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~  149 (208)
                      ..+..++..+|++|+|||+++..+......|....    ..++|+++|+||+|+.+..  .......++..+++   .++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~  155 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAI  155 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEE
Confidence            99999999999999999999876666555554322    2358999999999985422  12223444555555   489


Q ss_pred             EeecCCCCChHHHHHHHHHHcC
Q 028507          150 ETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ++||++|.|++++|++|...++
T Consensus       156 ~~Sa~~g~gi~~l~~~l~~~~~  177 (179)
T cd01890         156 LVSAKTGLGVEDLLEAIVERIP  177 (179)
T ss_pred             EeeccCCCCHHHHHHHHHhhCC
Confidence            9999999999999999998763

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.

>cd01898 Obg Obg subfamily

Probab=99.94  E-value=3e-25  Score=158.58  Aligned_cols=158  Identities=17%  Similarity=0.154  Sum_probs=113.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh----hhhchhh---hccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER----FRSLIPS---YIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~---~~~~~d   83 (208)
                      +|+++|.+|+|||||+++|.+........+..+.+.....+.+.+. ..+.+|||||+..    ...+...   .+..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~~-~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDG-RSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCCC-CeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            6899999999999999999976543222222233332333333332 4799999999642    1122222   245699


Q ss_pred             EEEEEEeCCCh-hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-cCCeEEEeecCCCCCh
Q 028507           84 VAVVVYDVASR-QSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-LNVMFIETSAKAGFNI  159 (208)
Q Consensus        84 ~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i  159 (208)
                      ++++|+|++++ ++++.+..|++.+.....  ...|+++|+||+|+.+.... ......+... .+.+++++|++++.|+
T Consensus        81 ~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi  159 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGL  159 (170)
T ss_pred             EEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCH
Confidence            99999999998 788888899888876542  36899999999998765543 3334444444 3678999999999999


Q ss_pred             HHHHHHHHHHc
Q 028507          160 KPLFRKIAAAL  170 (208)
Q Consensus       160 ~~~~~~l~~~~  170 (208)
                      +++|++|.+.+
T Consensus       160 ~~l~~~i~~~~  170 (170)
T cd01898         160 DELLRKLAELL  170 (170)
T ss_pred             HHHHHHHHhhC
Confidence            99999998753

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.94  E-value=1.3e-24  Score=152.89  Aligned_cols=158  Identities=27%  Similarity=0.427  Sum_probs=127.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|.+|+|||||++++....+...+.++.+.+.....+..++..+.+.+||+||+..+...+..+...++.++.+
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            47999999999999999999999888778888888888777777777668899999999999988888888999999999


Q ss_pred             EeCCCh-hhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           89 YDVASR-QSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        89 ~d~~~~-~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|.... .++.... .++..+......+.|+++++||.|+.... ........+......+++++||.++.|+.++|++|
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence            999866 5666544 66666665554478999999999997644 23333333334445689999999999999999987


Q ss_pred             H
Q 028507          167 A  167 (208)
Q Consensus       167 ~  167 (208)
                      .
T Consensus       160 ~  160 (161)
T TIGR00231       160 E  160 (161)
T ss_pred             h
Confidence            4

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd01878 HflX HflX subfamily

Probab=99.93  E-value=7e-25  Score=161.34  Aligned_cols=156  Identities=20%  Similarity=0.231  Sum_probs=114.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh---------hhhchhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER---------FRSLIPSY   78 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~   78 (208)
                      ..++|+|+|++|+|||||++++++..+.....+..+.+.....+.+.+. ..+.+|||||...         +.... ..
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~  117 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-EE  117 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-HH
Confidence            4589999999999999999999988754333333333444444444443 3799999999732         22222 23


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      +..+|++++|+|++++.++.....|...+......++|+++|+||+|+.+.....     ......+.+++++||+++.|
T Consensus       118 ~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~-----~~~~~~~~~~~~~Sa~~~~g  192 (204)
T cd01878         118 VAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE-----ERLEAGRPDAVFISAKTGEG  192 (204)
T ss_pred             HhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH-----HHhhcCCCceEEEEcCCCCC
Confidence            5689999999999998888877777777765554568999999999986644321     33445567899999999999


Q ss_pred             hHHHHHHHHHHc
Q 028507          159 IKPLFRKIAAAL  170 (208)
Q Consensus       159 i~~~~~~l~~~~  170 (208)
                      +++++++|...+
T Consensus       193 i~~l~~~L~~~~  204 (204)
T cd01878         193 LDELLEAIEELL  204 (204)
T ss_pred             HHHHHHHHHhhC
Confidence            999999998753

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.93  E-value=4.8e-24  Score=152.87  Aligned_cols=155  Identities=21%  Similarity=0.334  Sum_probs=116.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|++|+|||||++++.+..+. ...++.+.+.  ..+...+  ..+.+||++|+..+...+..++..+|+++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii   86 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLI   86 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEE
Confidence            45799999999999999999999987653 2344544333  2334444  67999999999988888888899999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-----CeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-----VMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~  160 (208)
                      +|+|++++.++.....++..+... ...++|+++++||.|+.+...  ..+.........     ..++++||++|+|++
T Consensus        87 ~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~  164 (173)
T cd04155          87 YVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAP--AEEIAEALNLHDLRDRTWHIQACSAKTGEGLQ  164 (173)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCC--HHHHHHHcCCcccCCCeEEEEEeECCCCCCHH
Confidence            999999988888877776666443 235699999999999865332  222222221111     247899999999999


Q ss_pred             HHHHHHHH
Q 028507          161 PLFRKIAA  168 (208)
Q Consensus       161 ~~~~~l~~  168 (208)
                      ++|+||.+
T Consensus       165 ~~~~~l~~  172 (173)
T cd04155         165 EGMNWVCK  172 (173)
T ss_pred             HHHHHHhc
Confidence            99999975

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.

>cd04171 SelB SelB subfamily

Probab=99.93  E-value=2.1e-24  Score=153.23  Aligned_cols=152  Identities=20%  Similarity=0.148  Sum_probs=105.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc---CCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK---FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +.|+++|.+|+|||||+++|.+..   +.....++.+.+.....+.+.. ...+.+|||||++++......++.++|+++
T Consensus         1 ~~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii   79 (164)
T cd04171           1 MIIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVL   79 (164)
T ss_pred             CEEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEE
Confidence            478999999999999999999643   3333334444444444455542 357999999999988776777788999999


Q ss_pred             EEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--CCHHHHHHHHHh---cCCeEEEeecCCCCC
Q 028507           87 VVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEEGEAKSRE---LNVMFIETSAKAGFN  158 (208)
Q Consensus        87 ~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~~~~~~~~---~~~~~~~~sa~~~~~  158 (208)
                      +|+|+++   +++.+.+    ..+.. .+ ..|+++++||+|+.+...  ....+.......   .+.+++++|++++.|
T Consensus        80 ~V~d~~~~~~~~~~~~~----~~~~~-~~-~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  153 (164)
T cd04171          80 LVVAADEGIMPQTREHL----EILEL-LG-IKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEG  153 (164)
T ss_pred             EEEECCCCccHhHHHHH----HHHHH-hC-CCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcC
Confidence            9999986   3333222    22221 11 248999999999865421  112333333333   357999999999999


Q ss_pred             hHHHHHHHHH
Q 028507          159 IKPLFRKIAA  168 (208)
Q Consensus       159 i~~~~~~l~~  168 (208)
                      ++++++.+..
T Consensus       154 v~~l~~~l~~  163 (164)
T cd04171         154 IEELKEYLDE  163 (164)
T ss_pred             HHHHHHHHhh
Confidence            9999998864

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

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

Probab=99.93  E-value=8.5e-24  Score=141.74  Aligned_cols=175  Identities=24%  Similarity=0.313  Sum_probs=145.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC--CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-hhchhhhccCCcE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF--DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-RSLIPSYIRDSSV   84 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~d~   84 (208)
                      +-.|++++|..++|||+++.+|+.+..  ...+.+|....+....-...+..-.+.++||.|.... ..+-+.++.-+|+
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDa   87 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADA   87 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCce
Confidence            457999999999999999999986554  3455666653333333333444557999999998877 5567788999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      +++||+..+++||..+.-+-..|.+... ..+||++++||.|+.+++++..+.++.|+..-.+.++++++.+...+-+.|
T Consensus        88 fVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf  167 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPF  167 (198)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHH
Confidence            9999999999999998887777777654 669999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCccccccccc
Q 028507          164 RKIAAALPGMETLSSTKQE  182 (208)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~  182 (208)
                      ..+...+...+.++.....
T Consensus       168 ~~l~~rl~~pqskS~Fpl~  186 (198)
T KOG3883|consen  168 TYLASRLHQPQSKSTFPLS  186 (198)
T ss_pred             HHHHHhccCCcccccCcch
Confidence            9999999877777665554

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

Probab=99.92  E-value=1.3e-23  Score=156.11  Aligned_cols=166  Identities=40%  Similarity=0.610  Sum_probs=135.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +..+||+++|++|+|||||+++|.++.+...+.++.+..............+++.+|||+|++++..++..++.++++++
T Consensus         3 ~~~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l   82 (219)
T COG1100           3 MKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGIL   82 (219)
T ss_pred             cceEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEE
Confidence            34599999999999999999999999999999988887777777766665789999999999999999999999999999


Q ss_pred             EEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc------------CCCHHHHHHHHHhc---CCeEEE
Q 028507           87 VVYDVASR-QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR------------QVSIEEGEAKSREL---NVMFIE  150 (208)
Q Consensus        87 ~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~------------~~~~~~~~~~~~~~---~~~~~~  150 (208)
                      ++||.++. ...+....|+..+........|+++++||+|+....            ..............   ...+++
T Consensus        83 ~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (219)
T COG1100          83 IVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLE  162 (219)
T ss_pred             EEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeE
Confidence            99999984 455557888888887776679999999999997653            22222222222222   234899


Q ss_pred             eecC--CCCChHHHHHHHHHHcCC
Q 028507          151 TSAK--AGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       151 ~sa~--~~~~i~~~~~~l~~~~~~  172 (208)
                      +|++  ++.++.++|..+...+..
T Consensus       163 ~s~~~~~~~~v~~~~~~~~~~~~~  186 (219)
T COG1100         163 TSAKSLTGPNVNELFKELLRKLLE  186 (219)
T ss_pred             eecccCCCcCHHHHHHHHHHHHHH
Confidence            9999  999999999998888753

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.92  E-value=2.3e-24  Score=149.67  Aligned_cols=160  Identities=21%  Similarity=0.325  Sum_probs=131.8

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..++++|+++|..++||||++++|..+.+... .||.+...  ..+.+.+  +.+++||.+|+++++..|..++.+.+++
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnV--E~v~ykn--~~f~vWDvGGq~k~R~lW~~Y~~~t~~l   88 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNV--ETVEYKN--ISFTVWDVGGQEKLRPLWKHYFQNTQGL   88 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccccce--eEEEEcc--eEEEEEecCCCcccccchhhhccCCcEE
Confidence            45789999999999999999999998887665 77776544  4444444  7899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----cCCeEEEeecCCCCCh
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----LNVMFIETSAKAGFNI  159 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i  159 (208)
                      |||+|.+|++.+......+..+..+.. .+.|+++.+||.|+..+..  ..++......     ....+..++|.+|+|+
T Consensus        89 IfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als--~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL  166 (181)
T KOG0070|consen   89 IFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALS--AAEITNKLGLHSLRSRNWHIQSTCAISGEGL  166 (181)
T ss_pred             EEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCC--HHHHHhHhhhhccCCCCcEEeeccccccccH
Confidence            999999999999998888888766654 6799999999999866443  3444333332     2457899999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028507          160 KPLFRKIAAALPG  172 (208)
Q Consensus       160 ~~~~~~l~~~~~~  172 (208)
                      .+.++|+...+..
T Consensus       167 ~egl~wl~~~~~~  179 (181)
T KOG0070|consen  167 YEGLDWLSNNLKK  179 (181)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988754

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.92  E-value=1.4e-23  Score=142.32  Aligned_cols=159  Identities=23%  Similarity=0.362  Sum_probs=124.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .++++|.++|..|+||||++++|.+... ....|+.+  +....+.+++  +.+++||.+|+..++..|+.|+..+|++|
T Consensus        14 erE~riLiLGLdNsGKTti~~kl~~~~~-~~i~pt~g--f~Iktl~~~~--~~L~iwDvGGq~~lr~~W~nYfestdglI   88 (185)
T KOG0073|consen   14 EREVRILILGLDNSGKTTIVKKLLGEDT-DTISPTLG--FQIKTLEYKG--YTLNIWDVGGQKTLRSYWKNYFESTDGLI   88 (185)
T ss_pred             hheeEEEEEecCCCCchhHHHHhcCCCc-cccCCccc--eeeEEEEecc--eEEEEEEcCCcchhHHHHHHhhhccCeEE
Confidence            3589999999999999999999997763 33445554  3344444544  78999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHH------HHHHHHhcCCeEEEeecCCCCCh
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEE------GEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~------~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      +|+|.+|+..++.....++.+..... -+.|+++++||.|+..+-  +.++      ....++...++++.||+.+|+++
T Consensus        89 wvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l--~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l  166 (185)
T KOG0073|consen   89 WVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGAL--SLEEISKALDLEELAKSHHWRLVKCSAVTGEDL  166 (185)
T ss_pred             EEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCcccc--CHHHHHHhhCHHHhccccCceEEEEeccccccH
Confidence            99999999888887666666544322 458999999999986432  2222      23334556789999999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028507          160 KPLFRKIAAALPG  172 (208)
Q Consensus       160 ~~~~~~l~~~~~~  172 (208)
                      .+-+.|+...+.+
T Consensus       167 ~~gidWL~~~l~~  179 (185)
T KOG0073|consen  167 LEGIDWLCDDLMS  179 (185)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999887754

>PRK04213 GTP-binding protein; Provisional

Probab=99.92  E-value=1.5e-24  Score=159.15  Aligned_cols=162  Identities=23%  Similarity=0.251  Sum_probs=108.6

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCC-----------ch
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG-----------QE   69 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~   69 (208)
                      |..+.....++|+++|.+|+|||||+++|.+..+.....++.+..  ...+.+.    .+.+|||||           .+
T Consensus         1 ~~~~~~~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t~~--~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~   74 (201)
T PRK04213          1 MFETRPDRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRK--PNHYDWG----DFILTDLPGFGFMSGVPKEVQE   74 (201)
T ss_pred             CCcccCCCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCceeeC--ceEEeec----ceEEEeCCccccccccCHHHHH
Confidence            444455567999999999999999999999887765555544332  3333332    589999999           34


Q ss_pred             hhhhchhhhc----cCCcEEEEEEeCCChhhH-H---------HHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHH
Q 028507           70 RFRSLIPSYI----RDSSVAVVVYDVASRQSF-L---------NTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIE  135 (208)
Q Consensus        70 ~~~~~~~~~~----~~~d~~i~v~d~~~~~s~-~---------~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~  135 (208)
                      .+...+..++    ..++++++|+|.++...+ +         .-...+..+.   ..++|+++|+||+|+.+..   ..
T Consensus        75 ~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~p~iiv~NK~Dl~~~~---~~  148 (201)
T PRK04213         75 KIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR---ELGIPPIVAVNKMDKIKNR---DE  148 (201)
T ss_pred             HHHHHHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHH---HcCCCeEEEEECccccCcH---HH
Confidence            5555544444    346788889988643211 0         0011122222   2469999999999986543   23


Q ss_pred             HHHHHHHhcCC---------eEEEeecCCCCChHHHHHHHHHHcCCCcc
Q 028507          136 EGEAKSRELNV---------MFIETSAKAGFNIKPLFRKIAAALPGMET  175 (208)
Q Consensus       136 ~~~~~~~~~~~---------~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  175 (208)
                      ....++..+++         +++++||++| |+++++++|.+.+.+..+
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~~~  196 (201)
T PRK04213        149 VLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHEAKR  196 (201)
T ss_pred             HHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcCccc
Confidence            34445555554         5899999999 999999999998865544

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.92  E-value=1.9e-24  Score=150.17  Aligned_cols=134  Identities=19%  Similarity=0.246  Sum_probs=99.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch-----hhhhchhhhccCCcEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE-----RFRSLIPSYIRDSSVA   85 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~~   85 (208)
                      ||+++|++|+|||||+++|.+..+.  +.++.+.       .+.     -.+|||||..     .+..+.. .++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~~-------~~~-----~~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQAV-------EYN-----DGAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccceeE-------EEc-----CeeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            8999999999999999999987652  2222221       111     2689999972     3333333 47899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~  164 (208)
                      |+|||++++.++.. ..|...    .  ..|+++|+||+|+.+ .....++...++...+. +++++||+++.|++++|+
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~----~--~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  138 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASI----F--VKPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALVD  138 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHh----c--cCCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHH
Confidence            99999999888755 233322    1  249999999999864 33445666777777776 899999999999999999


Q ss_pred             HHH
Q 028507          165 KIA  167 (208)
Q Consensus       165 ~l~  167 (208)
                      ++.
T Consensus       139 ~l~  141 (142)
T TIGR02528       139 YLN  141 (142)
T ss_pred             HHh
Confidence            874

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.92  E-value=1.2e-23  Score=164.10  Aligned_cols=159  Identities=16%  Similarity=0.135  Sum_probs=118.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchhhhccCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIPSYIRDS   82 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~   82 (208)
                      -.|+|+|.+++|||||+++|...+......+.++.......+.+.+ ...+.|||+||..+       ....+...+..+
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhiera  236 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERT  236 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhh
Confidence            4689999999999999999998765444444444555555555543 25799999999742       122233346689


Q ss_pred             cEEEEEEeCCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC
Q 028507           83 SVAVVVYDVASR---QSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF  157 (208)
Q Consensus        83 d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  157 (208)
                      +++|+|+|+++.   ++++.+..|.+++..+..  .+.|+++|+||+|+.+... .....+.+...++.+++++||+++.
T Consensus       237 d~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~  315 (329)
T TIGR02729       237 RVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGE  315 (329)
T ss_pred             CEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCc
Confidence            999999999976   678888888887766532  4689999999999976533 2334455555667899999999999


Q ss_pred             ChHHHHHHHHHHc
Q 028507          158 NIKPLFRKIAAAL  170 (208)
Q Consensus       158 ~i~~~~~~l~~~~  170 (208)
                      ++++++++|.+.+
T Consensus       316 GI~eL~~~I~~~l  328 (329)
T TIGR02729       316 GLDELLYALAELL  328 (329)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998765

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.

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

Probab=99.92  E-value=8.9e-24  Score=150.66  Aligned_cols=158  Identities=18%  Similarity=0.163  Sum_probs=109.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      .|+|+|.+|+|||||+++|....+.....++.+.+.....+... .....+.+|||||+..+..++..++..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            58999999999999999999888766544444434333333333 13467999999999998888888899999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH-HHHHHHHH------hcCCeEEEeecCCCCChHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI-EEGEAKSR------ELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~-~~~~~~~~------~~~~~~~~~sa~~~~~i~~~  162 (208)
                      |+++...... ...+..+..   .++|+++|+||+|+.+...... ........      ...++++++|++++.|+.++
T Consensus        82 d~~~~~~~~~-~~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (168)
T cd01887          82 AADDGVMPQT-IEAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDL  157 (168)
T ss_pred             ECCCCccHHH-HHHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHH
Confidence            9987432111 112222222   3589999999999864321111 11111111      11358999999999999999


Q ss_pred             HHHHHHHcCC
Q 028507          163 FRKIAAALPG  172 (208)
Q Consensus       163 ~~~l~~~~~~  172 (208)
                      +++|.+...+
T Consensus       158 ~~~l~~~~~~  167 (168)
T cd01887         158 LEAILLLAEK  167 (168)
T ss_pred             HHHHHHhhhc
Confidence            9999887643

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.

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

Probab=99.92  E-value=1.8e-23  Score=147.56  Aligned_cols=148  Identities=20%  Similarity=0.235  Sum_probs=111.6

Q ss_pred             EEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc------hhhhc--cCCcEE
Q 028507           14 FLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL------IPSYI--RDSSVA   85 (208)
Q Consensus        14 vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~~   85 (208)
                      |+|.+|+|||||++++.+..+.....++++.+.....+.+++  ..+.+|||||+..+...      ...++  ..+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998875555556666666666666665  57999999998776542      34445  499999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |+|+|+++++...   .+...+..   .++|+++|+||+|+.+...... ....++..++.+++++|+.++.|+.+++++
T Consensus        79 i~v~d~~~~~~~~---~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879          79 VNVVDATNLERNL---YLTLQLLE---LGLPVVVALNMIDEAEKRGIKI-DLDKLSELLGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             EEEeeCCcchhHH---HHHHHHHH---cCCCEEEEEehhhhcccccchh-hHHHHHHhhCCCeEEEEccCCCCHHHHHHH
Confidence            9999998764432   33333332   3589999999999976554433 345666777889999999999999999999


Q ss_pred             HHHHc
Q 028507          166 IAAAL  170 (208)
Q Consensus       166 l~~~~  170 (208)
                      |....
T Consensus       152 l~~~~  156 (158)
T cd01879         152 IAELA  156 (158)
T ss_pred             HHHHh
Confidence            98764

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.92  E-value=4.5e-23  Score=143.78  Aligned_cols=153  Identities=48%  Similarity=0.780  Sum_probs=122.1

Q ss_pred             EEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCC
Q 028507           14 FLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        14 vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                      |+|++|+|||||++++.+... .....++. .+..............+.+||+||+..+.......++.+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999998877 44555555 6777777777777789999999999988887788899999999999999


Q ss_pred             ChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCcccCCCHHH-HHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           93 SRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLVEKRQVSIEE-GEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        93 ~~~s~~~~~~~~-~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~-~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ++.+...+..|+ ..........+|+++++||+|+.......... ........+.+++++|+.++.++.+++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            998888887763 33333445679999999999987655433322 3344455567999999999999999999885

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

>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=99.92  E-value=2.7e-24  Score=149.27  Aligned_cols=148  Identities=23%  Similarity=0.295  Sum_probs=110.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh------chhhh--ccC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS------LIPSY--IRD   81 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~--~~~   81 (208)
                      ++|+++|.||+|||||+|+|++.+......|.++.+.....+...+  ..+.++|+||...+..      ....+  ...
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            5899999999999999999999987767778888888777888877  5699999999543322      22223  368


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507           82 SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      .|++|+|+|+++.+.-.   +....+..   .++|+++++||+|..+.+.... ....+...++++++.+||++++|+++
T Consensus        79 ~D~ii~VvDa~~l~r~l---~l~~ql~e---~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~  151 (156)
T PF02421_consen   79 PDLIIVVVDATNLERNL---YLTLQLLE---LGIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDE  151 (156)
T ss_dssp             SSEEEEEEEGGGHHHHH---HHHHHHHH---TTSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHH
T ss_pred             CCEEEEECCCCCHHHHH---HHHHHHHH---cCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHH
Confidence            99999999998653322   33333333   3499999999999987766543 35677778899999999999999999


Q ss_pred             HHHHH
Q 028507          162 LFRKI  166 (208)
Q Consensus       162 ~~~~l  166 (208)
                      +++.|
T Consensus       152 L~~~I  156 (156)
T PF02421_consen  152 LKDAI  156 (156)
T ss_dssp             HHHHH
T ss_pred             HHhhC
Confidence            98875

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 ....

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.91  E-value=3.9e-23  Score=162.54  Aligned_cols=153  Identities=21%  Similarity=0.201  Sum_probs=113.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch---------hhhhchhhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE---------RFRSLIPSYI   79 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~   79 (208)
                      .++|+++|.+|+|||||+|+|++..+.....+.++.++....+.+.++ ..+.+|||+|..         .|.... ..+
T Consensus       189 ~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~  266 (351)
T TIGR03156       189 VPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRATL-EEV  266 (351)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHHHH-HHH
Confidence            389999999999999999999988754444455556666666666432 479999999972         233322 247


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      .++|++++|+|++++.+.+.+..|...+......+.|+++|+||+|+.+...     ..... ....+++++||++|.|+
T Consensus       267 ~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~~~~-~~~~~~i~iSAktg~GI  340 (351)
T TIGR03156       267 READLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IERLE-EGYPEAVFVSAKTGEGL  340 (351)
T ss_pred             HhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HHHHH-hCCCCEEEEEccCCCCH
Confidence            8999999999999988877776666666554445689999999999864322     11111 12346899999999999


Q ss_pred             HHHHHHHHHH
Q 028507          160 KPLFRKIAAA  169 (208)
Q Consensus       160 ~~~~~~l~~~  169 (208)
                      ++++++|.+.
T Consensus       341 ~eL~~~I~~~  350 (351)
T TIGR03156       341 DLLLEAIAER  350 (351)
T ss_pred             HHHHHHHHhh
Confidence            9999998764

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).

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.91  E-value=5.4e-24  Score=174.22  Aligned_cols=185  Identities=22%  Similarity=0.209  Sum_probs=131.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch----------hhhhch-
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE----------RFRSLI-   75 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~-   75 (208)
                      ..++|+++|.+|+|||||+++|++... .....++++.+.....+..++.  .+.+|||||..          .+..+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHHH
Confidence            458999999999999999999998765 3445566666666666667764  47899999952          222222 


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHH-HHhcCCeEEEee
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAK-SRELNVMFIETS  152 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~-~~~~~~~~~~~s  152 (208)
                      ..+++.+|++|+|+|++++.++..+. ++..+.   ..++|+++|+||+|+.+.....  ..+.... .....++++++|
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~---~~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~S  363 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR-VLSMVI---EAGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNIS  363 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHH---HcCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEE
Confidence            23578999999999999877766653 333332   2468999999999996532111  1112211 222346899999


Q ss_pred             cCCCCChHHHHHHHHHHcCCCccccccccccccccccccccCCCCC
Q 028507          153 AKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGNASQ  198 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  198 (208)
                      |++|.|++++|+.+.+.+.....+.++.++...-.+.-..++++..
T Consensus       364 Ak~g~gv~~lf~~i~~~~~~~~~~i~t~~ln~~~~~~~~~~~~p~~  409 (472)
T PRK03003        364 AKTGRAVDKLVPALETALESWDTRIPTGRLNAWLGELVAATPPPVR  409 (472)
T ss_pred             CCCCCCHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHcCCCCCC
Confidence            9999999999999999998888888887777666665555555433

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

Probab=99.91  E-value=2.3e-23  Score=152.11  Aligned_cols=146  Identities=17%  Similarity=0.244  Sum_probs=100.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc--CcCCCCC------------CCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhch
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY--DKFDNTY------------QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI   75 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   75 (208)
                      .+|+++|.+++|||||+++|+.  +.+....            ..+.+.+.......+..+.+.+.+|||||+++|...+
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            4899999999999999999997  4443322            1223333333333344445789999999999999999


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC-CCHHHHHHHHH-------hcCCe
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ-VSIEEGEAKSR-------ELNVM  147 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~-~~~~~~~~~~~-------~~~~~  147 (208)
                      ..+++++|++++|+|+++. .......++..+..   .++|+++++||+|+.+.+. ....+...+..       ..+++
T Consensus        83 ~~~~~~~d~~ilV~d~~~~-~~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFP  158 (194)
T ss_pred             HHHHHhcCEEEEEEECCCC-ccHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccC
Confidence            9999999999999999863 22223333333322   3589999999999864322 11233333332       23678


Q ss_pred             EEEeecCCCCCh
Q 028507          148 FIETSAKAGFNI  159 (208)
Q Consensus       148 ~~~~sa~~~~~i  159 (208)
                      ++++||++|.|+
T Consensus       159 iv~~Sa~~g~~~  170 (194)
T cd01891         159 VLYASAKNGWAS  170 (194)
T ss_pred             EEEeehhccccc
Confidence            999999999765

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

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

Probab=99.91  E-value=2.7e-23  Score=149.23  Aligned_cols=155  Identities=19%  Similarity=0.172  Sum_probs=109.1

Q ss_pred             EEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh----hhc---hhhhccCCcEEE
Q 028507           14 FLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF----RSL---IPSYIRDSSVAV   86 (208)
Q Consensus        14 vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~---~~~~~~~~d~~i   86 (208)
                      ++|++|||||||+++|.+........+.++.+.....+.+.+ ...+.+||+||....    ..+   ....+..+|+++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPD-GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCC-CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            589999999999999998875222223333333334444441 256899999996431    112   223467899999


Q ss_pred             EEEeCCCh------hhHHHHHHHHHHHHHhcC-------CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeec
Q 028507           87 VVYDVASR------QSFLNTSKWIDEVRTERG-------SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSA  153 (208)
Q Consensus        87 ~v~d~~~~------~s~~~~~~~~~~i~~~~~-------~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa  153 (208)
                      +|+|++++      .++..+..|...+.....       .+.|+++|+||+|+..................+..++++|+
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  159 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISA  159 (176)
T ss_pred             EEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEeh
Confidence            99999987      477777777777765432       36999999999999765543333223344445678999999


Q ss_pred             CCCCChHHHHHHHHHH
Q 028507          154 KAGFNIKPLFRKIAAA  169 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~  169 (208)
                      +++.|++++++++...
T Consensus       160 ~~~~gl~~l~~~l~~~  175 (176)
T cd01881         160 KTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhhcCHHHHHHHHHhh
Confidence            9999999999998765

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

>TIGR00436 era GTP-binding protein Era

Probab=99.90  E-value=1.4e-22  Score=155.04  Aligned_cols=160  Identities=18%  Similarity=0.107  Sum_probs=109.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh--------hchhhhccC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR--------SLIPSYIRD   81 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~   81 (208)
                      +|+++|.+|+|||||+|+|++.++.. +..+.++...........+  ..+.+|||||.....        ......+..
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~--~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGA--SQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCC--cEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            68999999999999999999987632 2333333333222222233  469999999965321        112345789


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChH
Q 028507           82 SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIK  160 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  160 (208)
                      +|++++|+|+++..+.+  ..++..+..   .+.|+++|+||+|+.+.... ......+....+. +++++||++|.|++
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDKL-LPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHHH-HHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            99999999999765553  333443433   35899999999998643222 2333344444444 89999999999999


Q ss_pred             HHHHHHHHHcCCCccccc
Q 028507          161 PLFRKIAAALPGMETLSS  178 (208)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~  178 (208)
                      +++++|.+.+++.+...+
T Consensus       154 ~L~~~l~~~l~~~~~~~~  171 (270)
T TIGR00436       154 FLAAFIEVHLPEGPFRYP  171 (270)
T ss_pred             HHHHHHHHhCCCCCCCCC
Confidence            999999999876654443

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

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

Probab=99.90  E-value=1.7e-22  Score=142.21  Aligned_cols=146  Identities=21%  Similarity=0.222  Sum_probs=108.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc--------hhhhcc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL--------IPSYIR   80 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~   80 (208)
                      ++|+++|++|+|||||++++.+.... ....+.++.+.....+...+  ..+.+|||||...+...        ....+.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~   79 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG--IPVRLIDTAGIRETEDEIEKIGIERAREAIE   79 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCC--EEEEEEECCCcCCCcchHHHHHHHHHHHHHh
Confidence            68999999999999999999987642 23334444444445555554  57899999997654321        224567


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      .+|++++|+|++++.+......+..      ....|+++|+||+|+.+....       .....+.+++++|++++.|+.
T Consensus        80 ~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~  146 (157)
T cd04164          80 EADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLD  146 (157)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHH
Confidence            9999999999998776666544332      345999999999998765443       234446789999999999999


Q ss_pred             HHHHHHHHHc
Q 028507          161 PLFRKIAAAL  170 (208)
Q Consensus       161 ~~~~~l~~~~  170 (208)
                      +++++|...+
T Consensus       147 ~l~~~l~~~~  156 (157)
T cd04164         147 ELKEALLELA  156 (157)
T ss_pred             HHHHHHHHhh
Confidence            9999998764

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.90  E-value=3e-22  Score=157.25  Aligned_cols=163  Identities=21%  Similarity=0.289  Sum_probs=112.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-hhhch-------hh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-FRSLI-------PS   77 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~-------~~   77 (208)
                      .+.++|+++|.+|+|||||+|+|++.++.. ...+.++.+.....+..++  ..+.||||||... +..+.       ..
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~~  127 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAWS  127 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHHH
Confidence            355799999999999999999999887642 2223333344444455555  4689999999743 22111       12


Q ss_pred             hccCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC--CeEEEeecC
Q 028507           78 YIRDSSVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN--VMFIETSAK  154 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~  154 (208)
                      .+..+|++++|+|..+  ++.... .++..+...   +.|+++|+||+|+.+.   ...+...++...+  ..++++||+
T Consensus       128 ~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAk  199 (339)
T PRK15494        128 SLHSADLVLLIIDSLK--SFDDITHNILDKLRSL---NIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISAL  199 (339)
T ss_pred             HhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEecc
Confidence            3679999999999874  444443 344444332   3677889999998643   2345555555444  589999999


Q ss_pred             CCCChHHHHHHHHHHcCCCcccccc
Q 028507          155 AGFNIKPLFRKIAAALPGMETLSST  179 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~~~~~~~~~~~  179 (208)
                      +|.|++++|++|...+++-+-..+.
T Consensus       200 tg~gv~eL~~~L~~~l~~~~~~~~~  224 (339)
T PRK15494        200 SGKNIDGLLEYITSKAKISPWLYAE  224 (339)
T ss_pred             CccCHHHHHHHHHHhCCCCCCCCCC
Confidence            9999999999999999876554443

>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=99.90  E-value=8.6e-23  Score=137.57  Aligned_cols=114  Identities=32%  Similarity=0.561  Sum_probs=88.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCC--CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFD--NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ||+|+|++|+|||||+++|.+..+.  ....+..+.+..............+.+||++|.+.+...+..++..+|++|+|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999988876  23334444455555666677766799999999998888877789999999999


Q ss_pred             EeCCChhhHHHHHHH---HHHHHHhcCCCCcEEEEEeCCC
Q 028507           89 YDVASRQSFLNTSKW---IDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~---~~~i~~~~~~~~piivv~nK~D  125 (208)
                      ||++++++++.+..+   +..+... ..++|+++|+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~-~~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKR-DKNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHH-SSCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHcc-CCCCCEEEEEeccC
Confidence            999999999997555   4444443 35599999999998

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=4e-22  Score=159.34  Aligned_cols=160  Identities=19%  Similarity=0.146  Sum_probs=118.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchhhhccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIPSYIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   83 (208)
                      .|+|+|.||||||||+++|++.+......+.++.......+.+.. ...+.+||+||...       +...+...+..++
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~PGliega~~~~gLg~~fLrhier~~  238 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDD-GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTR  238 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeC-CceEEEEECCCCcccccccchHHHHHHHHHhhCC
Confidence            799999999999999999998775444445555555444444441 25699999999642       1122233466799


Q ss_pred             EEEEEEeCCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           84 VAVVVYDVASR---QSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        84 ~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      ++|+|+|+++.   ++++....|..++..+..  .++|++||+||+|+.+.    .+..+.+...++.+++++||+++.|
T Consensus       239 llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~----~e~l~~l~~~l~~~i~~iSA~tgeG  314 (424)
T PRK12297        239 VIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA----EENLEEFKEKLGPKVFPISALTGQG  314 (424)
T ss_pred             EEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC----HHHHHHHHHHhCCcEEEEeCCCCCC
Confidence            99999999864   677777888888876543  46899999999998321    2344555666668899999999999


Q ss_pred             hHHHHHHHHHHcCCCcc
Q 028507          159 IKPLFRKIAAALPGMET  175 (208)
Q Consensus       159 i~~~~~~l~~~~~~~~~  175 (208)
                      +++++++|.+.+.+.+.
T Consensus       315 I~eL~~~L~~~l~~~~~  331 (424)
T PRK12297        315 LDELLYAVAELLEETPE  331 (424)
T ss_pred             HHHHHHHHHHHHHhCcc
Confidence            99999999998865543

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=3e-22  Score=161.99  Aligned_cols=164  Identities=18%  Similarity=0.093  Sum_probs=117.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchhhhccCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIPSYIRDS   82 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~   82 (208)
                      ..|+|||.||+|||||+++|++.+......+.++.......+.+.+  ..+.+||+||...       .......++..+
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhiera  237 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHIERC  237 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHHHhc
Confidence            4799999999999999999998766544455565665555566655  5799999999532       111223356889


Q ss_pred             cEEEEEEeCCCh----hhHHHHHHHHHHHHHhc-----------CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCe
Q 028507           83 SVAVVVYDVASR----QSFLNTSKWIDEVRTER-----------GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVM  147 (208)
Q Consensus        83 d~~i~v~d~~~~----~s~~~~~~~~~~i~~~~-----------~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  147 (208)
                      |++|+|+|+++.    +.+..+..+..++..+.           ....|++||+||+|+.+.... .+.........+++
T Consensus       238 dvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el-~e~l~~~l~~~g~~  316 (500)
T PRK12296        238 AVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAREL-AEFVRPELEARGWP  316 (500)
T ss_pred             CEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHH-HHHHHHHHHHcCCe
Confidence            999999999852    35555555555554432           135899999999998654432 22223333455789


Q ss_pred             EEEeecCCCCChHHHHHHHHHHcCCCccc
Q 028507          148 FIETSAKAGFNIKPLFRKIAAALPGMETL  176 (208)
Q Consensus       148 ~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  176 (208)
                      ++++||+++.|+++++.+|.+.+......
T Consensus       317 Vf~ISA~tgeGLdEL~~~L~ell~~~r~~  345 (500)
T PRK12296        317 VFEVSAASREGLRELSFALAELVEEARAA  345 (500)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhhcc
Confidence            99999999999999999999998766543

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.89  E-value=2.4e-22  Score=163.12  Aligned_cols=149  Identities=24%  Similarity=0.262  Sum_probs=113.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc--------hhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL--------IPSY   78 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   78 (208)
                      ..++|+++|.+|+|||||+|+|++... .....+.++.+.....+.+++  ..+.+|||||...+...        ...+
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREA  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            358999999999999999999998764 234455666666666777766  56899999998654332        2235


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      +..+|++++|+|++++.+++....|..      ..+.|+++|+||+|+.+.....        ...+.+++++|+++|.|
T Consensus       292 ~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~G  357 (449)
T PRK05291        292 IEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEG  357 (449)
T ss_pred             HHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCC
Confidence            789999999999998877665443332      3458999999999996543321        33456899999999999


Q ss_pred             hHHHHHHHHHHcCC
Q 028507          159 IKPLFRKIAAALPG  172 (208)
Q Consensus       159 i~~~~~~l~~~~~~  172 (208)
                      +++++++|.+.+..
T Consensus       358 I~~L~~~L~~~l~~  371 (449)
T PRK05291        358 IDELREAIKELAFG  371 (449)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998754

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.89  E-value=5.7e-22  Score=160.11  Aligned_cols=152  Identities=21%  Similarity=0.227  Sum_probs=114.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc--------hhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL--------IPSY   78 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   78 (208)
                      ..++|+++|++|+|||||+|+|++... .....++++.+.....+.+++  ..+.+|||||...+...        ...+
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~~~  279 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSFKA  279 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHHHH
Confidence            458999999999999999999998753 234456666777777777776  56899999998654332        2346


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      ++.+|++++|||++++.+++..  |+..+..   .++|+++|+||+|+.+.      +...++..++.+++++|+++ .|
T Consensus       280 ~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~g  347 (442)
T TIGR00450       280 IKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LK  347 (442)
T ss_pred             HhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CC
Confidence            7899999999999988776654  5554432   45899999999998543      12334556677899999998 59


Q ss_pred             hHHHHHHHHHHcCCC
Q 028507          159 IKPLFRKIAAALPGM  173 (208)
Q Consensus       159 i~~~~~~l~~~~~~~  173 (208)
                      ++++|+.|.+.+.+.
T Consensus       348 I~~~~~~L~~~i~~~  362 (442)
T TIGR00450       348 IKALVDLLTQKINAF  362 (442)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999998888877543

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.89  E-value=2.7e-22  Score=146.21  Aligned_cols=158  Identities=20%  Similarity=0.224  Sum_probs=102.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC----cCCC---CCCCccceeeEEEEEEEC------------CEEEEEEEEEcCCchh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD----KFDN---TYQATIGIDFLSKTMYLE------------DRTVRLQLWDTAGQER   70 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~----~~~~---~~~~~~~~~~~~~~~~~~------------~~~~~~~i~D~~G~~~   70 (208)
                      ++|+++|++|+|||||+++|+..    .+..   +..+..+.+.....+.+.            +..+.+.+|||||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999862    1211   112233333333223332            2357899999999877


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--CHHHHHHHHH------
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--SIEEGEAKSR------  142 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~~~~~~~~~~------  142 (208)
                      +..........+|++++|+|+++.........+.  +....  ++|+++++||+|+......  ..++......      
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~~--~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  156 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEIL--CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKT  156 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHHc--CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            6544444567889999999998643222222221  22222  4799999999998643221  1222222111      


Q ss_pred             -hcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          143 -ELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       143 -~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                       ..+++++++||+++.|+++++++|...+.
T Consensus       157 ~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         157 RFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence             13568999999999999999999998875

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

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.89  E-value=1.5e-22  Score=134.92  Aligned_cols=157  Identities=23%  Similarity=0.328  Sum_probs=125.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      .++.+.++|..++|||||+|....+.+.....|+.+...    .+++.+.+.+.+||.||++.|..+|+.|.++++++++
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnm----rk~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY   94 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNM----RKVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVY   94 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccchhhhccccccee----EEeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEE
Confidence            368899999999999999999999999888888887543    3455566889999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-----CeEEEeecCCCCChHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-----VMFIETSAKAGFNIKP  161 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  161 (208)
                      |+|+++++.+......+..+... .-.++|+++++||.|+..+  +.............     +-.|.+|+++..+++.
T Consensus        95 ~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A--L~~~~li~rmgL~sitdREvcC~siScke~~Nid~  172 (186)
T KOG0075|consen   95 VVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA--LSKIALIERMGLSSITDREVCCFSISCKEKVNIDI  172 (186)
T ss_pred             EeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCccc--ccHHHHHHHhCccccccceEEEEEEEEcCCccHHH
Confidence            99999998877766655555332 2367999999999998553  22333322222222     2468899999999999


Q ss_pred             HHHHHHHHc
Q 028507          162 LFRKIAAAL  170 (208)
Q Consensus       162 ~~~~l~~~~  170 (208)
                      +.+||+++.
T Consensus       173 ~~~Wli~hs  181 (186)
T KOG0075|consen  173 TLDWLIEHS  181 (186)
T ss_pred             HHHHHHHHh
Confidence            999999875

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.89  E-value=4.7e-22  Score=140.35  Aligned_cols=144  Identities=17%  Similarity=0.208  Sum_probs=101.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch----hhhhchhhhccCCcEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE----RFRSLIPSYIRDSSVAV   86 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~~~~~d~~i   86 (208)
                      +|+++|.+|+|||||+++|.+.... . ..+.       .+.+...    .+||+||..    ++.......+.++|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~~-~-~~~~-------~v~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYTL-A-RKTQ-------AVEFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCcc-C-ccce-------EEEECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            7999999999999999998764321 1 1111       1122221    269999962    22222223478999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC--eEEEeecCCCCChHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV--MFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~--~~~~~sa~~~~~i~~~~~  164 (208)
                      +|+|+++.+++..  .|+..+    ..+.|+++++||+|+.+   ...+....++.+.++  +++++|++++.|++++|+
T Consensus        70 ~v~d~~~~~s~~~--~~~~~~----~~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~  140 (158)
T PRK15467         70 YVHGANDPESRLP--AGLLDI----GVSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVD  140 (158)
T ss_pred             EEEeCCCcccccC--HHHHhc----cCCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHH
Confidence            9999998765532  333332    23578999999999854   235566677777775  899999999999999999


Q ss_pred             HHHHHcCCCccc
Q 028507          165 KIAAALPGMETL  176 (208)
Q Consensus       165 ~l~~~~~~~~~~  176 (208)
                      ++.+.+.+...+
T Consensus       141 ~l~~~~~~~~~~  152 (158)
T PRK15467        141 YLASLTKQEEAG  152 (158)
T ss_pred             HHHHhchhhhcc
Confidence            999988655443

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.89  E-value=1e-21  Score=142.52  Aligned_cols=155  Identities=24%  Similarity=0.260  Sum_probs=110.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCC----------------CccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQ----------------ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL   74 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   74 (208)
                      +|+|+|.+|+|||||+++|.+........                ...+...........  ...+.+||+||+..+...
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~   78 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWP--DRRVNFIDTPGHEDFSSE   78 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeC--CEEEEEEeCCCcHHHHHH
Confidence            58999999999999999999776644321                112223323333333  367999999999988888


Q ss_pred             hhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHHHHh---------
Q 028507           75 IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAKSRE---------  143 (208)
Q Consensus        75 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~~~~---------  143 (208)
                      +..++..+|++++|+|++++..... ..++..+..   .+.|+++++||+|+..+....  ..+.......         
T Consensus        79 ~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (189)
T cd00881          79 VIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEE  154 (189)
T ss_pred             HHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhh
Confidence            8888999999999999987544332 233333332   469999999999987532211  2223333322         


Q ss_pred             -----cCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          144 -----LNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       144 -----~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                           ...+++++|++++.|+++++.+|...++
T Consensus       155 ~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         155 GTRNGLLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             hcccCCcceEEEEecccCcCHHHHHHHHHhhCC
Confidence                 3468999999999999999999998874

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.89  E-value=3e-22  Score=162.84  Aligned_cols=169  Identities=20%  Similarity=0.186  Sum_probs=116.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc-----------h
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL-----------I   75 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------~   75 (208)
                      ..++|+++|.+|+|||||+++|++... .....+.++.+.....+..++  ..+.+|||||+.++...           .
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~e~~~~~~~  248 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNG--KKYLLIDTAGIRRKGKVTEGVEKYSVLRT  248 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECC--cEEEEEECCCccccccchhhHHHHHHHHH
Confidence            458999999999999999999997653 234445555555555555555  36899999997543322           1


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-h----cCCeEEE
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-E----LNVMFIE  150 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~----~~~~~~~  150 (208)
                      ..+++.+|++|+|+|++++.+..... ++..+.   ..++|+++|+||+|+.+.. ....+...... .    .++++++
T Consensus       249 ~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~---~~~~~iiiv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~vi~  323 (429)
T TIGR03594       249 LKAIERADVVLLVLDATEGITEQDLR-IAGLIL---EAGKALVIVVNKWDLVKDE-KTREEFKKELRRKLPFLDFAPIVF  323 (429)
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHH-HHHHHH---HcCCcEEEEEECcccCCCH-HHHHHHHHHHHHhcccCCCCceEE
Confidence            23578999999999999776555432 222222   2358999999999997211 11122222211 1    2468999


Q ss_pred             eecCCCCChHHHHHHHHHHcCCCcccccccccc
Q 028507          151 TSAKAGFNIKPLFRKIAAALPGMETLSSTKQEE  183 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~  183 (208)
                      +||++|.|+.++|+++...+.....+.++.+..
T Consensus       324 ~SA~~g~~v~~l~~~i~~~~~~~~~~i~t~~ln  356 (429)
T TIGR03594       324 ISALTGQGVDKLLDAIDEVYENANRRISTSKLN  356 (429)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHhcCcCCHHHHH
Confidence            999999999999999999887766666555443

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.

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.89  E-value=2.3e-22  Score=135.20  Aligned_cols=170  Identities=24%  Similarity=0.516  Sum_probs=147.0

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ++.-.+||.++|++..|||||+-.+.++.+++++..+.++....+.+.+.+-.+.+.|||.+|++++..+.+-....+-+
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsva   95 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVA   95 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEE
Confidence            34568999999999999999999999999998889999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc-----CCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR-----QVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~-----~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      ++|+||.+.+.++..+.+||...+......+| ++|++|.|..-.-     ..-..+++.+++..++.++.+|+....|+
T Consensus        96 IlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv  174 (205)
T KOG1673|consen   96 ILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINV  174 (205)
T ss_pred             EEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccH
Confidence            99999999999999999999999887776677 5678999963211     11123456677778899999999999999


Q ss_pred             HHHHHHHHHHcCCCcc
Q 028507          160 KPLFRKIAAALPGMET  175 (208)
Q Consensus       160 ~~~~~~l~~~~~~~~~  175 (208)
                      .++|..+...+.+.+-
T Consensus       175 ~KIFK~vlAklFnL~~  190 (205)
T KOG1673|consen  175 QKIFKIVLAKLFNLPW  190 (205)
T ss_pred             HHHHHHHHHHHhCCce
Confidence            9999998888765543

>cd01894 EngA1 EngA1 subfamily

Probab=99.89  E-value=6.3e-22  Score=139.37  Aligned_cols=147  Identities=22%  Similarity=0.194  Sum_probs=101.9

Q ss_pred             EEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh--------chhhhccCCc
Q 028507           13 VFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS--------LIPSYIRDSS   83 (208)
Q Consensus        13 ~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d   83 (208)
                      +++|.+|+|||||+++|.+.... ....+.++.+........++  ..+.+|||||+..+..        .....+..+|
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d   78 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEAD   78 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCC
Confidence            47999999999999999976521 22233333444444555555  5799999999877433        3345678899


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPL  162 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~  162 (208)
                      ++++|+|..++.+.... .....+..   .+.|+++|+||+|+.+....     .......+. .++++|++++.|++++
T Consensus        79 ~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          79 VILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             EEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHH
Confidence            99999999865433322 12222222   24999999999998654322     222334565 7899999999999999


Q ss_pred             HHHHHHHc
Q 028507          163 FRKIAAAL  170 (208)
Q Consensus       163 ~~~l~~~~  170 (208)
                      |+++.+.+
T Consensus       150 ~~~l~~~~  157 (157)
T cd01894         150 LDAILELL  157 (157)
T ss_pred             HHHHHhhC
Confidence            99998753

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.89  E-value=1.5e-21  Score=155.30  Aligned_cols=163  Identities=18%  Similarity=0.143  Sum_probs=119.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchhhhccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIPSYIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   83 (208)
                      .|+|||.||||||||+|+|++.+......+.++.....-.+...+ ...+.|+|+||...       .......++..++
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~rad  239 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDD-ERSFVVADIPGLIEGASEGAGLGIRFLKHLERCR  239 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCC-CcEEEEEeCCCccccccchhhHHHHHHHHHHhCC
Confidence            699999999999999999998776555556666555555555543 23599999999643       1122234578999


Q ss_pred             EEEEEEeCC---ChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC--CeEEEeecCCC
Q 028507           84 VAVVVYDVA---SRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN--VMFIETSAKAG  156 (208)
Q Consensus        84 ~~i~v~d~~---~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~  156 (208)
                      ++++|+|++   +.+.++....|+..+..+..  ...|+++|+||+|+.....+ ......+....+  .+++.+||+++
T Consensus       240 vlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg  318 (390)
T PRK12298        240 VLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASG  318 (390)
T ss_pred             EEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCC
Confidence            999999998   45567777777777766532  35899999999998654332 233344444444  37899999999


Q ss_pred             CChHHHHHHHHHHcCCCcc
Q 028507          157 FNIKPLFRKIAAALPGMET  175 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~~~  175 (208)
                      .++++++++|.+.+++.+.
T Consensus       319 ~GIdeLl~~I~~~L~~~~~  337 (390)
T PRK12298        319 LGVKELCWDLMTFIEENPR  337 (390)
T ss_pred             cCHHHHHHHHHHHhhhCcc
Confidence            9999999999998876543

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=1.8e-21  Score=159.47  Aligned_cols=152  Identities=20%  Similarity=0.204  Sum_probs=109.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh--------hhhchhhhcc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER--------FRSLIPSYIR   80 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~   80 (208)
                      .+|+|+|.+|||||||+|+|++.... ....++.+.+.......+.+  ..+.+|||||.+.        +......++.
T Consensus        39 ~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~  116 (472)
T PRK03003         39 PVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG--RRFTVVDTGGWEPDAKGLQASVAEQAEVAMR  116 (472)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC--cEEEEEeCCCcCCcchhHHHHHHHHHHHHHH
Confidence            68999999999999999999987642 34455555565555666666  4589999999752        3334556788


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCCh
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNI  159 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i  159 (208)
                      .+|++|+|+|+++..++.. ..+...+..   .++|+++|+||+|+....   .+..+.+  ..++ ..+++||++|.|+
T Consensus       117 ~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~--~~g~~~~~~iSA~~g~gi  187 (472)
T PRK03003        117 TADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALW--SLGLGEPHPVSALHGRGV  187 (472)
T ss_pred             hCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHH--hcCCCCeEEEEcCCCCCc
Confidence            9999999999997655432 233333332   359999999999985422   1122222  2343 4579999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028507          160 KPLFRKIAAALPG  172 (208)
Q Consensus       160 ~~~~~~l~~~~~~  172 (208)
                      +++|++|...+.+
T Consensus       188 ~eL~~~i~~~l~~  200 (472)
T PRK03003        188 GDLLDAVLAALPE  200 (472)
T ss_pred             HHHHHHHHhhccc
Confidence            9999999998865

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.89  E-value=1.3e-21  Score=163.12  Aligned_cols=158  Identities=19%  Similarity=0.226  Sum_probs=114.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc-------CCCCCC------CccceeeEE--EEEEE---CCEEEEEEEEEcCCchhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK-------FDNTYQ------ATIGIDFLS--KTMYL---EDRTVRLQLWDTAGQERF   71 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~-------~~~~~~------~~~~~~~~~--~~~~~---~~~~~~~~i~D~~G~~~~   71 (208)
                      -+|+++|+.++|||||+++|+...       +...+.      ...+++...  ..+.+   ++..+.++||||||+.+|
T Consensus         4 RNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF   83 (595)
T TIGR01393         4 RNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDF   83 (595)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHH
Confidence            589999999999999999998542       111111      112333332  33333   455689999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC---eE
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV---MF  148 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~  148 (208)
                      ...+..++..+|++|+|+|+++..+......|+..+.    .++|+++|+||+|+.+..  .......+...+++   .+
T Consensus        84 ~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~v  157 (595)
T TIGR01393        84 SYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASEA  157 (595)
T ss_pred             HHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcceE
Confidence            9999999999999999999998655666555554432    358999999999985432  12222344444555   48


Q ss_pred             EEeecCCCCChHHHHHHHHHHcCCC
Q 028507          149 IETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      +++||++|.|+.++|++|.+.++.-
T Consensus       158 i~vSAktG~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       158 ILASAKTGIGIEEILEAIVKRVPPP  182 (595)
T ss_pred             EEeeccCCCCHHHHHHHHHHhCCCC
Confidence            9999999999999999999988643

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.89  E-value=9.2e-22  Score=158.11  Aligned_cols=156  Identities=21%  Similarity=0.205  Sum_probs=112.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh--hhch------hhhccC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF--RSLI------PSYIRD   81 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--~~~~------~~~~~~   81 (208)
                      .+|+|+|.+|+|||||+|+|++..+.....++++.+.....+.+.+. ..+.+|||+|..+.  ...+      ...+..
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~  276 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQ  276 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhc
Confidence            58999999999999999999987765444555566666555655542 26889999997331  1111      223688


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCe-EEEeecCCCCChH
Q 028507           82 SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIK  160 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~  160 (208)
                      +|++|+|+|++++.+++.+..|...+......++|+++|+||+|+.+...   ....  ....+.+ ++.+||++|.|++
T Consensus       277 ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~~--~~~~~~~~~v~ISAktG~GId  351 (426)
T PRK11058        277 ATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRID--RDEENKPIRVWLSAQTGAGIP  351 (426)
T ss_pred             CCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHHH--HHhcCCCceEEEeCCCCCCHH
Confidence            99999999999988777776555555444445699999999999864321   1111  1123444 5889999999999


Q ss_pred             HHHHHHHHHcC
Q 028507          161 PLFRKIAAALP  171 (208)
Q Consensus       161 ~~~~~l~~~~~  171 (208)
                      +++++|.+.+.
T Consensus       352 eL~e~I~~~l~  362 (426)
T PRK11058        352 LLFQALTERLS  362 (426)
T ss_pred             HHHHHHHHHhh
Confidence            99999999874

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

Probab=99.88  E-value=1.1e-21  Score=144.00  Aligned_cols=161  Identities=19%  Similarity=0.196  Sum_probs=103.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC---CCCCCCccceeeEEEEEEEC---------------------------C----
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDFLSKTMYLE---------------------------D----   55 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~~~~~~---------------------------~----   55 (208)
                      ++|+++|+.|+|||||+..+.+...   ........++........+.                           +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            4799999999999999999975421   11111111111111111110                           1    


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--C
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--S  133 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~  133 (208)
                      ....+.||||||++.+...+...+..+|++++|+|++++.........+..+.. .+ ..|+++++||+|+.+....  .
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~-~~-~~~iiivvNK~Dl~~~~~~~~~  158 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEI-MG-LKHIIIVQNKIDLVKEEQALEN  158 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHH-cC-CCcEEEEEEchhccCHHHHHHH
Confidence            125799999999999888777778899999999999864211111222222222 21 2478999999998653221  1


Q ss_pred             HHHHHHHHHhc---CCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          134 IEEGEAKSREL---NVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       134 ~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      .++.+.++...   +++++++||++|.|++++|++|.+.+++
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~  200 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPT  200 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence            12333333332   5689999999999999999999988765

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

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.88  E-value=2.3e-21  Score=128.25  Aligned_cols=158  Identities=23%  Similarity=0.362  Sum_probs=124.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .++++|+.+|..++||||++..|..+... ...||++.  ....+.+.+  +++++||.+|++..+.+|+.++.+..++|
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ipTvGF--nvetVtykN--~kfNvwdvGGqd~iRplWrhYy~gtqglI   89 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGF--NVETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGLI   89 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCCc-ccccccce--eEEEEEeee--eEEeeeeccCchhhhHHHHhhccCCceEE
Confidence            47899999999999999999999877643 33455554  344444444  78999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----cCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----LNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~  160 (208)
                      ||+|..+.+.+++....+..+..+.. ...|++|.+||.|+..+..  ..++..+...     ..+-+.++++.+|+++.
T Consensus        90 FV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~--pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~  167 (180)
T KOG0071|consen   90 FVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMK--PQEIQDKLELERIRDRNWYVQPSCALSGDGLK  167 (180)
T ss_pred             EEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccC--HHHHHHHhccccccCCccEeeccccccchhHH
Confidence            99999988777777666665544433 5688999999999977654  4555544432     23578999999999999


Q ss_pred             HHHHHHHHHcC
Q 028507          161 PLFRKIAAALP  171 (208)
Q Consensus       161 ~~~~~l~~~~~  171 (208)
                      +-|.||.+.+.
T Consensus       168 eglswlsnn~~  178 (180)
T KOG0071|consen  168 EGLSWLSNNLK  178 (180)
T ss_pred             HHHHHHHhhcc
Confidence            99999987654

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.88  E-value=2.6e-21  Score=160.77  Aligned_cols=154  Identities=20%  Similarity=0.214  Sum_probs=112.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+..+|+++|++++|||||+++|.+..+.....++.+.+.....+.+++. ..+.|||||||+.|..++...+..+|++|
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaI  163 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVV  163 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEE
Confidence            35689999999999999999999988876655555555554455555443 26999999999999999988899999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC---------CeEEEeecCCCC
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN---------VMFIETSAKAGF  157 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~sa~~~~  157 (208)
                      +|+|+++.........    +......++|+++++||+|+.+.   ..++....+...+         .+++++||++|.
T Consensus       164 LVVda~dgv~~qT~e~----i~~~~~~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGe  236 (587)
T TIGR00487       164 LVVAADDGVMPQTIEA----ISHAKAANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGD  236 (587)
T ss_pred             EEEECCCCCCHhHHHH----HHHHHHcCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCC
Confidence            9999986321111111    22222245999999999998542   2333333333322         479999999999


Q ss_pred             ChHHHHHHHHH
Q 028507          158 NIKPLFRKIAA  168 (208)
Q Consensus       158 ~i~~~~~~l~~  168 (208)
                      |+.++|++|..
T Consensus       237 GI~eLl~~I~~  247 (587)
T TIGR00487       237 GIDELLDMILL  247 (587)
T ss_pred             ChHHHHHhhhh
Confidence            99999999875

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.88  E-value=2.4e-21  Score=141.54  Aligned_cols=160  Identities=23%  Similarity=0.230  Sum_probs=105.0

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc----------hhhhhch
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ----------ERFRSLI   75 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~   75 (208)
                      ....++|+++|.+|+|||||+++|++..+.....++.+.+........   ...+.||||||.          +.+..+.
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~   97 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLI   97 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHH
Confidence            345689999999999999999999987654443444433333222222   257999999994          2333344


Q ss_pred             hhhcc---CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHHHHhcCCeEEE
Q 028507           76 PSYIR---DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAKSRELNVMFIE  150 (208)
Q Consensus        76 ~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~  150 (208)
                      ..++.   ..+++++|+|.+++.+.... .+...+. .  .++|+++++||+|+.+..+..  ..++.........++++
T Consensus        98 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~-~--~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~  173 (196)
T PRK00454         98 EEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLK-E--YGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVIL  173 (196)
T ss_pred             HHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHH-H--cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEE
Confidence            44444   34688889998865333221 1112222 2  358899999999986543221  22233444444678999


Q ss_pred             eecCCCCChHHHHHHHHHHcCC
Q 028507          151 TSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +|++++.|++++++.|...+.+
T Consensus       174 ~Sa~~~~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        174 FSSLKKQGIDELRAAIAKWLAE  195 (196)
T ss_pred             EEcCCCCCHHHHHHHHHHHhcC
Confidence            9999999999999999887754

>cd01895 EngA2 EngA2 subfamily

Probab=99.88  E-value=7.3e-21  Score=135.98  Aligned_cols=155  Identities=23%  Similarity=0.251  Sum_probs=104.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-----------chh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-----------LIP   76 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----------~~~   76 (208)
                      .++|+++|.+|+|||||+++|++.... ....+.++..........++  ..+.+||+||......           ...
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG--KKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC--eeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            579999999999999999999987642 22333333334334444554  4588999999643211           112


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHH-Hhc----CCeEEEe
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-REL----NVMFIET  151 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~-~~~----~~~~~~~  151 (208)
                      ..+..+|++++|+|++++.+..... ++..+.   ..+.|+++++||+|+.+.......+..... ..+    ..+++++
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~~-~~~~~~---~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDLR-IAGLIL---EEGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFI  155 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHHH-HHHHHH---hcCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEE
Confidence            3467899999999999876654432 222222   235899999999998765422222222222 222    3589999


Q ss_pred             ecCCCCChHHHHHHHHHH
Q 028507          152 SAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~  169 (208)
                      |++++.|+.++++++.+.
T Consensus       156 Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         156 SALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             eccCCCCHHHHHHHHHHh
Confidence            999999999999998764

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.88  E-value=4.1e-21  Score=160.08  Aligned_cols=157  Identities=20%  Similarity=0.196  Sum_probs=118.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC---cCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD---KFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +.|+++|++++|||||+++|++.   .++.+..++.+++.....+..++  ..+.|||+||++.|.......+.++|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            46899999999999999999963   34445556666676666666666  68999999999999888888889999999


Q ss_pred             EEEeCCC---hhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCC--CHHHHHHHHHhc----CCeEEEeecCCC
Q 028507           87 VVYDVAS---RQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQV--SIEEGEAKSREL----NVMFIETSAKAG  156 (208)
Q Consensus        87 ~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~--~~~~~~~~~~~~----~~~~~~~sa~~~  156 (208)
                      +|+|+++   +++.+.+    ..+ ..  .++| +++++||+|+.+...+  ...++..++...    +++++++|+++|
T Consensus        79 LVVDa~~G~~~qT~ehl----~il-~~--lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG  151 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHL----AVL-DL--LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTG  151 (581)
T ss_pred             EEEECCCCCcHHHHHHH----HHH-HH--cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCC
Confidence            9999997   4444333    222 22  2477 9999999999764422  123444444443    468999999999


Q ss_pred             CChHHHHHHHHHHcCCCcc
Q 028507          157 FNIKPLFRKIAAALPGMET  175 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~~~  175 (208)
                      .|+++++++|...+.....
T Consensus       152 ~GI~eL~~~L~~l~~~~~~  170 (581)
T TIGR00475       152 QGIGELKKELKNLLESLDI  170 (581)
T ss_pred             CCchhHHHHHHHHHHhCCC
Confidence            9999999999887765543

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.

>cd04163 Era Era subfamily

Probab=99.87  E-value=9.5e-21  Score=134.38  Aligned_cols=157  Identities=18%  Similarity=0.206  Sum_probs=103.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCC-CCccceeeEEEEEEECCEEEEEEEEEcCCchhhh--------hchhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTY-QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR--------SLIPSY   78 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~   78 (208)
                      ...+|+++|++|+|||||++++.+....... .+..........  .......+.+|||||.....        ......
T Consensus         2 ~~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   79 (168)
T cd04163           2 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGI--YTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSA   79 (168)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEE--EEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHH
Confidence            4589999999999999999999987653221 111111111112  22223679999999965322        223445


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-CeEEEeecCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAGF  157 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~  157 (208)
                      +..+|++++|+|++++.. .....+...+...   +.|+++|+||+|+..................+ .+++++|++++.
T Consensus        80 ~~~~d~i~~v~d~~~~~~-~~~~~~~~~~~~~---~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  155 (168)
T cd04163          80 LKDVDLVLFVVDASEPIG-EGDEFILELLKKS---KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGE  155 (168)
T ss_pred             HHhCCEEEEEEECCCccC-chHHHHHHHHHHh---CCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCC
Confidence            789999999999997621 1122223333322   48999999999987433322333344444443 589999999999


Q ss_pred             ChHHHHHHHHHHc
Q 028507          158 NIKPLFRKIAAAL  170 (208)
Q Consensus       158 ~i~~~~~~l~~~~  170 (208)
                      ++++++++|.+.+
T Consensus       156 ~~~~l~~~l~~~~  168 (168)
T cd04163         156 NVDELLEEIVKYL  168 (168)
T ss_pred             ChHHHHHHHHhhC
Confidence            9999999997753

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.

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.87  E-value=1.4e-21  Score=135.74  Aligned_cols=169  Identities=31%  Similarity=0.545  Sum_probs=146.6

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCC
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDS   82 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   82 (208)
                      |......++++++|..|.||||++.+.+.+.|...+.++.+.......+..+.+.+++..|||.|++.+......++-+.
T Consensus         4 p~~~~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~   83 (216)
T KOG0096|consen    4 PPQQGLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQG   83 (216)
T ss_pred             CccccceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEec
Confidence            34445689999999999999999999999999999999999998888877777789999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      ...|++||++..-++.++.+|...+.+.++ ++||++++||.|.....  ...+...+-...++.+++.|++++-|.+.-
T Consensus        84 qcAiimFdVtsr~t~~n~~rwhrd~~rv~~-NiPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekP  160 (216)
T KOG0096|consen   84 QCAIIMFDVTSRFTYKNVPRWHRDLVRVRE-NIPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERP  160 (216)
T ss_pred             ceeEEEeeeeehhhhhcchHHHHHHHHHhc-CCCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccc
Confidence            999999999999999999999999988775 49999999999975433  223334445556789999999999999999


Q ss_pred             HHHHHHHcCCCc
Q 028507          163 FRKIAAALPGME  174 (208)
Q Consensus       163 ~~~l~~~~~~~~  174 (208)
                      |-|++..+...+
T Consensus       161 Fl~LarKl~G~p  172 (216)
T KOG0096|consen  161 FLWLARKLTGDP  172 (216)
T ss_pred             hHHHhhhhcCCC
Confidence            999999886543

>PRK00089 era GTPase Era; Reviewed

Probab=99.87  E-value=1.3e-20  Score=145.89  Aligned_cols=164  Identities=18%  Similarity=0.229  Sum_probs=108.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh--------hchhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR--------SLIPS   77 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~   77 (208)
                      ++--.|+|+|.+|+|||||+|+|++.++.. ...+.++...........  ...+.+|||||.....        .....
T Consensus         3 ~~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~--~~qi~~iDTPG~~~~~~~l~~~~~~~~~~   80 (292)
T PRK00089          3 FKSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTED--DAQIIFVDTPGIHKPKRALNRAMNKAAWS   80 (292)
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcC--CceEEEEECCCCCCchhHHHHHHHHHHHH
Confidence            355679999999999999999999887632 222322222222222222  2679999999964322        22334


Q ss_pred             hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-CeEEEeecCCC
Q 028507           78 YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAG  156 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~  156 (208)
                      .+..+|++++|+|++++.+. .....+..+.   ..+.|+++|+||+|+.............+....+ ..++++||+++
T Consensus        81 ~~~~~D~il~vvd~~~~~~~-~~~~i~~~l~---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~  156 (292)
T PRK00089         81 SLKDVDLVLFVVDADEKIGP-GDEFILEKLK---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKG  156 (292)
T ss_pred             HHhcCCEEEEEEeCCCCCCh-hHHHHHHHHh---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCC
Confidence            57899999999999873221 1222223332   2358999999999997432222334444444444 58999999999


Q ss_pred             CChHHHHHHHHHHcCCCccc
Q 028507          157 FNIKPLFRKIAAALPGMETL  176 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~~~~  176 (208)
                      .|+++++++|.+.+++.+..
T Consensus       157 ~gv~~L~~~L~~~l~~~~~~  176 (292)
T PRK00089        157 DNVDELLDVIAKYLPEGPPY  176 (292)
T ss_pred             CCHHHHHHHHHHhCCCCCCC
Confidence            99999999999998765433

>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=99.87  E-value=2.7e-21  Score=140.43  Aligned_cols=160  Identities=25%  Similarity=0.306  Sum_probs=107.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCC------------------CCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDN------------------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      +.++|+++|+.++|||||+++|+......                  +.....+.......+........++++|+||+.
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE   81 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence            35799999999999999999998543211                  111223333344444411333679999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC-CCHHHHH-HHHHhc---
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ-VSIEEGE-AKSREL---  144 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~-~~~~~~~-~~~~~~---  144 (208)
                      +|.......+..+|++|+|+|+.+.-.. ...+.+..+..   .++|+++++||+|+...+- ....+.. .+.+..   
T Consensus        82 ~f~~~~~~~~~~~D~ailvVda~~g~~~-~~~~~l~~~~~---~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~  157 (188)
T PF00009_consen   82 DFIKEMIRGLRQADIAILVVDANDGIQP-QTEEHLKILRE---LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGEN  157 (188)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEETTTBSTH-HHHHHHHHHHH---TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTST
T ss_pred             ceeecccceecccccceeeeeccccccc-ccccccccccc---cccceEEeeeeccchhhhHHHHHHHHHHHhccccccC
Confidence            9988888889999999999999854221 12222333322   3488999999999973221 0111222 222222   


Q ss_pred             ---CCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          145 ---NVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       145 ---~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                         .++++++||++|.|+.++++.|.+.++
T Consensus       158 ~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  158 GEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             TTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             ccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence               247999999999999999999999875

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 ....

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

Probab=99.87  E-value=1.5e-20  Score=137.87  Aligned_cols=118  Identities=19%  Similarity=0.363  Sum_probs=88.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCC-cEEEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDS-SVAVVVY   89 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~-d~~i~v~   89 (208)
                      +|+++|++|+|||+|+++|..+.+.....++ ............+....+.+||+||+.++...+..+++.+ +++|+|+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            6899999999999999999998776554433 2222222222113346799999999999988888888998 9999999


Q ss_pred             eCCCh-hhHHHHHHHHHHHHHh---cCCCCcEEEEEeCCCCCcc
Q 028507           90 DVASR-QSFLNTSKWIDEVRTE---RGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        90 d~~~~-~s~~~~~~~~~~i~~~---~~~~~piivv~nK~D~~~~  129 (208)
                      |+++. .++..+..++..+...   ....+|+++++||+|+...
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            99987 6677766666554332   2257999999999998653

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

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.86  E-value=1.5e-20  Score=159.80  Aligned_cols=151  Identities=19%  Similarity=0.227  Sum_probs=111.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+...|+|+|+.++|||||+++|....+.....++.+.+.....+.+++  ..++||||||+..|..++...+..+|++|
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDiaI  365 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIVV  365 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEEE
Confidence            4678999999999999999999998777555444444444444555555  57999999999999999998899999999


Q ss_pred             EEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHH-------HHHhcC--CeEEEeecC
Q 028507           87 VVYDVASR---QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEA-------KSRELN--VMFIETSAK  154 (208)
Q Consensus        87 ~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~-------~~~~~~--~~~~~~sa~  154 (208)
                      +|||+++.   ++.+.       +......++|++|++||+|+....   ..+...       ++..++  ++++++||+
T Consensus       366 LVVdAddGv~~qT~e~-------i~~a~~~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~vpvSAk  435 (787)
T PRK05306        366 LVVAADDGVMPQTIEA-------INHAKAAGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIFVPVSAK  435 (787)
T ss_pred             EEEECCCCCCHhHHHH-------HHHHHhcCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceEEEEeCC
Confidence            99999863   33322       222222459999999999985432   222211       122233  689999999


Q ss_pred             CCCChHHHHHHHHHH
Q 028507          155 AGFNIKPLFRKIAAA  169 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~  169 (208)
                      +|.|+.++|++|...
T Consensus       436 tG~GI~eLle~I~~~  450 (787)
T PRK05306        436 TGEGIDELLEAILLQ  450 (787)
T ss_pred             CCCCchHHHHhhhhh
Confidence            999999999998764

>COG1159 Era GTPase [General function prediction only]

Probab=99.86  E-value=1.9e-20  Score=139.82  Aligned_cols=168  Identities=17%  Similarity=0.204  Sum_probs=116.6

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh--------hhchh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF--------RSLIP   76 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~   76 (208)
                      .++--.|+++|.||+|||||+|++.+.+.. .+.-+.++.......+..+  ...+.|+||||...-        .....
T Consensus         3 ~~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~--~~QiIfvDTPGih~pk~~l~~~m~~~a~   80 (298)
T COG1159           3 KFKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTD--NAQIIFVDTPGIHKPKHALGELMNKAAR   80 (298)
T ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcC--CceEEEEeCCCCCCcchHHHHHHHHHHH
Confidence            356678999999999999999999999874 3334444444444444444  367999999995432        22233


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCC
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKA  155 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~  155 (208)
                      ..+..+|+++||+|+++...- .-...++.+..   .+.|+++++||+|....................+ .++++||+.
T Consensus        81 ~sl~dvDlilfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~  156 (298)
T COG1159          81 SALKDVDLILFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALK  156 (298)
T ss_pred             HHhccCcEEEEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccc
Confidence            447899999999999964332 12233344443   3489999999999877655322333333333333 899999999


Q ss_pred             CCChHHHHHHHHHHcCCCcccccc
Q 028507          156 GFNIKPLFRKIAAALPGMETLSST  179 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~~~~~~~~~  179 (208)
                      |.+++.+.+.+...+++-+--.+.
T Consensus       157 g~n~~~L~~~i~~~Lpeg~~~yp~  180 (298)
T COG1159         157 GDNVDTLLEIIKEYLPEGPWYYPE  180 (298)
T ss_pred             cCCHHHHHHHHHHhCCCCCCcCCh
Confidence            999999999999999877665543

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.86  E-value=1.6e-20  Score=158.27  Aligned_cols=156  Identities=19%  Similarity=0.236  Sum_probs=111.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCcccee--eEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGID--FLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +..+|+|+|+.++|||||+++|....+.....++.+.+  .+...+..++....++||||||++.|..++..++..+|++
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDia  322 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIA  322 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEE
Confidence            56799999999999999999999877654433333322  2223333334457899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHH-------HhcC--CeEEEeecCCC
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-------RELN--VMFIETSAKAG  156 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~-------~~~~--~~~~~~sa~~~  156 (208)
                      |+|+|+++......... +..+   ...++|+++++||+|+....   ..++....       ..++  ++++++||++|
T Consensus       323 ILVVDA~dGv~~QT~E~-I~~~---k~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG  395 (742)
T CHL00189        323 ILIIAADDGVKPQTIEA-INYI---QAANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISASQG  395 (742)
T ss_pred             EEEEECcCCCChhhHHH-HHHH---HhcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECCCC
Confidence            99999986322221111 1112   22459999999999986532   22222222       2233  58999999999


Q ss_pred             CChHHHHHHHHHHc
Q 028507          157 FNIKPLFRKIAAAL  170 (208)
Q Consensus       157 ~~i~~~~~~l~~~~  170 (208)
                      .|+.+++++|....
T Consensus       396 ~GIdeLle~I~~l~  409 (742)
T CHL00189        396 TNIDKLLETILLLA  409 (742)
T ss_pred             CCHHHHHHhhhhhh
Confidence            99999999998764

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.86  E-value=7.1e-21  Score=162.61  Aligned_cols=180  Identities=20%  Similarity=0.223  Sum_probs=122.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh----------hhhc-h
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER----------FRSL-I   75 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~-~   75 (208)
                      ..++|+++|.+|+|||||+|+|++.... ....++++.+.....+.+++.  .+.+|||||..+          +..+ .
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r~  526 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLRT  526 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCC--EEEEEECCCcccCcccchhHHHHHHHHH
Confidence            4589999999999999999999988742 334455556666666666664  477999999532          2211 1


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-h----cCCeEEE
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-E----LNVMFIE  150 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~----~~~~~~~  150 (208)
                      ...++.+|++++|+|+++..+...+. ++..+..   .++|+++|+||+|+.+...  ......... .    ...++++
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~  600 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVN  600 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEE
Confidence            23468999999999999876666543 2333322   3589999999999965322  111111111 1    1347899


Q ss_pred             eecCCCCChHHHHHHHHHHcCCCccccccccccccccccccccCC
Q 028507          151 TSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGN  195 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (208)
                      +||++|.|++++++.+.+.+.+...+.++.+.+......-..+++
T Consensus       601 iSAktg~gv~~L~~~i~~~~~~~~~~i~T~~Ln~~l~~~~~~~~~  645 (712)
T PRK09518        601 LSAKTGWHTNRLAPAMQEALESWDQRIPTGKLNAFLGKIQAEHPH  645 (712)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhcccCChHHHHHHHHHHHhhCCC
Confidence            999999999999999999998777766665554443333333343

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.86  E-value=1.3e-20  Score=157.23  Aligned_cols=146  Identities=18%  Similarity=0.222  Sum_probs=111.4

Q ss_pred             cCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc------hhhhc--cCCcEEEE
Q 028507           16 GDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL------IPSYI--RDSSVAVV   87 (208)
Q Consensus        16 G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~~i~   87 (208)
                      |++|+|||||+|+|++..+.....++++.+.....+.+++  ..+++|||||+.++...      .+.++  ..+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            8999999999999998877666667777776666666666  45899999998876543      23232  47899999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |+|+++.+..   .++...+.   ..++|+++++||+|+.+.+... .+.+.+.+.++++++++||++|.|++++++++.
T Consensus        79 VvDat~ler~---l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~  151 (591)
T TIGR00437        79 VVDASNLERN---LYLTLQLL---ELGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             EecCCcchhh---HHHHHHHH---hcCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHH
Confidence            9999875322   22222232   2469999999999987665554 345777888899999999999999999999998


Q ss_pred             HHc
Q 028507          168 AAL  170 (208)
Q Consensus       168 ~~~  170 (208)
                      +..
T Consensus       152 ~~~  154 (591)
T TIGR00437       152 KAI  154 (591)
T ss_pred             HHh
Confidence            764

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.

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.86  E-value=2.7e-21  Score=132.45  Aligned_cols=161  Identities=22%  Similarity=0.306  Sum_probs=123.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC-------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF-------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYI   79 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   79 (208)
                      -..|.++|+|+.++|||||+.++.....       +..-.++.+.......+.    ...+.+||.+|++..+++|..++
T Consensus        15 Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~----~~~l~fwdlgGQe~lrSlw~~yY   90 (197)
T KOG0076|consen   15 KEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVC----NAPLSFWDLGGQESLRSLWKKYY   90 (197)
T ss_pred             hhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeec----cceeEEEEcCChHHHHHHHHHHH
Confidence            3568999999999999999988764321       223344555444433333    35799999999999999999999


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH------hcCCeEEEee
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRT-ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR------ELNVMFIETS  152 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~------~~~~~~~~~s  152 (208)
                      ..+|++|+++|+++++.++......+.+.. ..-.++|+++.+||.|+.+..+  .+++.....      +...++.++|
T Consensus        91 ~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~--~~El~~~~~~~e~~~~rd~~~~pvS  168 (197)
T KOG0076|consen   91 WLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAME--AAELDGVFGLAELIPRRDNPFQPVS  168 (197)
T ss_pred             HHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhh--HHHHHHHhhhhhhcCCccCccccch
Confidence            999999999999999999987766666543 4447899999999999865433  233322222      2246899999


Q ss_pred             cCCCCChHHHHHHHHHHcCCC
Q 028507          153 AKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~~~  173 (208)
                      |.+|+|+++-.+|+...+++.
T Consensus       169 al~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  169 ALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhhcccHHHHHHHHHHHHhhc
Confidence            999999999999999998766

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.86  E-value=3.4e-20  Score=158.24  Aligned_cols=155  Identities=17%  Similarity=0.186  Sum_probs=115.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc----------hh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL----------IP   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----------~~   76 (208)
                      ++.++|+++|++|+|||||+|+|++.+......+.++.+.....+..  ...++.+||+||..++...          ..
T Consensus         1 ~~~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~--~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~   78 (772)
T PRK09554          1 MKKLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFST--TDHQVTLVDLPGTYSLTTISSQTSLDEQIAC   78 (772)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEc--CceEEEEEECCCccccccccccccHHHHHHH
Confidence            35689999999999999999999987664444555555544444444  3467999999998766432          11


Q ss_pred             hh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecC
Q 028507           77 SY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK  154 (208)
Q Consensus        77 ~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  154 (208)
                      .+  ...+|++++|+|+++.+...   ++...+.+   .++|+++++||+|+.+.+.. ....+.+.+.++++++++|++
T Consensus        79 ~~l~~~~aD~vI~VvDat~ler~l---~l~~ql~e---~giPvIvVlNK~Dl~~~~~i-~id~~~L~~~LG~pVvpiSA~  151 (772)
T PRK09554         79 HYILSGDADLLINVVDASNLERNL---YLTLQLLE---LGIPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVST  151 (772)
T ss_pred             HHHhccCCCEEEEEecCCcchhhH---HHHHHHHH---cCCCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEee
Confidence            22  24799999999998754422   33334433   35999999999998765555 345677778899999999999


Q ss_pred             CCCChHHHHHHHHHHc
Q 028507          155 AGFNIKPLFRKIAAAL  170 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~~  170 (208)
                      +++|++++++.+.+..
T Consensus       152 ~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        152 RGRGIEALKLAIDRHQ  167 (772)
T ss_pred             cCCCHHHHHHHHHHhh
Confidence            9999999999998765

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.86  E-value=2.9e-20  Score=151.46  Aligned_cols=148  Identities=21%  Similarity=0.188  Sum_probs=106.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh--------hhhchhhhcc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER--------FRSLIPSYIR   80 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~   80 (208)
                      ++|+|+|.+|||||||+++|.+.... ....+..+.+.......+++  ..+.+|||||+..        +......++.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            58999999999999999999987642 23345555566666666666  6799999999876        2233445678


Q ss_pred             CCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCC
Q 028507           81 DSSVAVVVYDVASRQSFL--NTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGF  157 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~  157 (208)
                      .+|++|+|+|++++.+..  .+..|+.   .   .+.|+++|+||+|..+.    ...... +..+++ .++++||++|.
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l~---~---~~~piilv~NK~D~~~~----~~~~~~-~~~lg~~~~~~iSa~~g~  148 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKILR---K---SNKPVILVVNKVDGPDE----EADAYE-FYSLGLGEPYPISAEHGR  148 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHH---H---cCCcEEEEEECccCccc----hhhHHH-HHhcCCCCCEEEEeeCCC
Confidence            999999999998643322  2233332   2   25899999999996431    122222 235566 48999999999


Q ss_pred             ChHHHHHHHHHHc
Q 028507          158 NIKPLFRKIAAAL  170 (208)
Q Consensus       158 ~i~~~~~~l~~~~  170 (208)
                      |+.++++.+....
T Consensus       149 gv~~l~~~I~~~~  161 (435)
T PRK00093        149 GIGDLLDAILEEL  161 (435)
T ss_pred             CHHHHHHHHHhhC
Confidence            9999999998844

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

Probab=99.86  E-value=2.2e-20  Score=134.66  Aligned_cols=147  Identities=19%  Similarity=0.230  Sum_probs=95.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch----------hhhhchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE----------RFRSLIP   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~~   76 (208)
                      .+.++|+|+|.+|+|||||+++|.+..+.....++.+.+........++   .+.+|||||..          .+..+..
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~~   92 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLIE   92 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHHH
Confidence            4678999999999999999999998764333333333333333333332   58999999942          2333334


Q ss_pred             hhcc---CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--CCHHHHHHHHHhcC--CeEE
Q 028507           77 SYIR---DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEEGEAKSRELN--VMFI  149 (208)
Q Consensus        77 ~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~~~~~~~~~~--~~~~  149 (208)
                      .+++   .++++++|+|++++-+.... .++..+..   .++|+++++||+|+.++..  ....+++..+...+  ..++
T Consensus        93 ~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~  168 (179)
T TIGR03598        93 EYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQ  168 (179)
T ss_pred             HHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceE
Confidence            4444   46899999999875443333 22233322   3589999999999865322  22344445555544  4899


Q ss_pred             EeecCCCCChH
Q 028507          150 ETSAKAGFNIK  160 (208)
Q Consensus       150 ~~sa~~~~~i~  160 (208)
                      ++||++|+|++
T Consensus       169 ~~Sa~~g~gi~  179 (179)
T TIGR03598       169 LFSSLKKTGID  179 (179)
T ss_pred             EEECCCCCCCC
Confidence            99999999973

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.86  E-value=6.9e-21  Score=155.07  Aligned_cols=167  Identities=22%  Similarity=0.219  Sum_probs=113.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc-CCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc-----------h
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK-FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL-----------I   75 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------~   75 (208)
                      ..++|+++|.+|+|||||+++|++.. ......++++.+.....+..++  ..+.+|||||..+....           .
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~~~  249 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVIRT  249 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHHHH
Confidence            46999999999999999999999765 3344455555555555555555  45889999996432111           1


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHH-HHHHh----cCCeEEE
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGE-AKSRE----LNVMFIE  150 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~-~~~~~----~~~~~~~  150 (208)
                      ..++..+|++|+|+|++++.+..... +...+..   .++|+++++||+|+.+...  ..+.. .....    ..+++++
T Consensus       250 ~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~--~~~~~~~~~~~l~~~~~~~i~~  323 (435)
T PRK00093        250 LKAIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKT--MEEFKKELRRRLPFLDYAPIVF  323 (435)
T ss_pred             HHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHH--HHHHHHHHHHhcccccCCCEEE
Confidence            23578999999999999765544432 2222222   3589999999999874322  11111 11111    2469999


Q ss_pred             eecCCCCChHHHHHHHHHHcCCCccccccccc
Q 028507          151 TSAKAGFNIKPLFRKIAAALPGMETLSSTKQE  182 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~  182 (208)
                      +||+++.|+.++++.+.+.+.+...+.++...
T Consensus       324 ~SA~~~~gv~~l~~~i~~~~~~~~~~i~t~~l  355 (435)
T PRK00093        324 ISALTGQGVDKLLEAIDEAYENANRRISTSVL  355 (435)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHHcCcCChHHH
Confidence            99999999999999998877665555544443

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.86  E-value=3.6e-20  Score=154.71  Aligned_cols=158  Identities=18%  Similarity=0.215  Sum_probs=111.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC--cCCC-------------CCCCccceeeEEEEEEE---CCEEEEEEEEEcCCchhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD--KFDN-------------TYQATIGIDFLSKTMYL---EDRTVRLQLWDTAGQERF   71 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~--~~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~   71 (208)
                      .+|+|+|+.++|||||+.+|+..  .+..             +.....++......+.+   ++..+.+++|||||+.+|
T Consensus         8 RNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF   87 (600)
T PRK05433          8 RNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDF   87 (600)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHH
Confidence            58999999999999999999853  1110             11112222222222322   455688999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC---eE
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV---MF  148 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~  148 (208)
                      ...+..++..+|++|+|+|+++.........|+...    ..++|+++|+||+|+.....  ......+...+++   .+
T Consensus        88 ~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~----~~~lpiIvViNKiDl~~a~~--~~v~~ei~~~lg~~~~~v  161 (600)
T PRK05433         88 SYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL----ENDLEIIPVLNKIDLPAADP--ERVKQEIEDVIGIDASDA  161 (600)
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH----HCCCCEEEEEECCCCCcccH--HHHHHHHHHHhCCCcceE
Confidence            998999999999999999999764444444444332    23589999999999854321  1222333344455   48


Q ss_pred             EEeecCCCCChHHHHHHHHHHcCCC
Q 028507          149 IETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      +++||++|.|+.+++++|.+.++.-
T Consensus       162 i~iSAktG~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        162 VLVSAKTGIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             EEEecCCCCCHHHHHHHHHHhCccc
Confidence            9999999999999999999988643

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.85  E-value=4.1e-20  Score=150.37  Aligned_cols=152  Identities=22%  Similarity=0.212  Sum_probs=109.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCc--------hhhhhchhhhccC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ--------ERFRSLIPSYIRD   81 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~~~~   81 (208)
                      +|+++|.+|||||||+|+|++.... ....+..+.+.......+.+  ..+.+|||||.        ..+......++..
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~--~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~   78 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG--REFILIDTGGIEEDDDGLDKQIREQAEIAIEE   78 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECC--eEEEEEECCCCCCcchhHHHHHHHHHHHHHhh
Confidence            5899999999999999999987642 23345555555566666666  46999999996        3344455667889


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChH
Q 028507           82 SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIK  160 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  160 (208)
                      +|++++|+|+.+..+... ..+...++.   .++|+++|+||+|+.+....    . ..+..+++ .++++||.+|.|+.
T Consensus        79 ad~vl~vvD~~~~~~~~d-~~i~~~l~~---~~~piilVvNK~D~~~~~~~----~-~~~~~lg~~~~~~vSa~~g~gv~  149 (429)
T TIGR03594        79 ADVILFVVDGREGLTPED-EEIAKWLRK---SGKPVILVANKIDGKKEDAV----A-AEFYSLGFGEPIPISAEHGRGIG  149 (429)
T ss_pred             CCEEEEEEeCCCCCCHHH-HHHHHHHHH---hCCCEEEEEECccCCccccc----H-HHHHhcCCCCeEEEeCCcCCChH
Confidence            999999999986433222 122222322   25899999999998654321    1 22345676 79999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028507          161 PLFRKIAAALPGM  173 (208)
Q Consensus       161 ~~~~~l~~~~~~~  173 (208)
                      ++++++...+.+.
T Consensus       150 ~ll~~i~~~l~~~  162 (429)
T TIGR03594       150 DLLDAILELLPEE  162 (429)
T ss_pred             HHHHHHHHhcCcc
Confidence            9999999988653

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.85  E-value=4.1e-20  Score=145.28  Aligned_cols=151  Identities=21%  Similarity=0.198  Sum_probs=113.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh---------hchhhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR---------SLIPSYI   79 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~   79 (208)
                      ..|+|||.||||||||+|+|++.+. ..+..|.++.+.......+.+.  .|.++||+|.+...         ......+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~--~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGR--EFILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCc--eEEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            6799999999999999999998876 3456778888888888888774  59999999976422         2334457


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCC
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFN  158 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~  158 (208)
                      ..+|++|||+|....  .....+.+..+..  ..++|+++|+||+|-.     ..+........+|+ ..+.+||..|.|
T Consensus        82 ~eADvilfvVD~~~G--it~~D~~ia~~Lr--~~~kpviLvvNK~D~~-----~~e~~~~efyslG~g~~~~ISA~Hg~G  152 (444)
T COG1160          82 EEADVILFVVDGREG--ITPADEEIAKILR--RSKKPVILVVNKIDNL-----KAEELAYEFYSLGFGEPVPISAEHGRG  152 (444)
T ss_pred             HhCCEEEEEEeCCCC--CCHHHHHHHHHHH--hcCCCEEEEEEcccCc-----hhhhhHHHHHhcCCCCceEeehhhccC
Confidence            899999999999742  2222222222222  2359999999999964     12333333445676 899999999999


Q ss_pred             hHHHHHHHHHHcC
Q 028507          159 IKPLFRKIAAALP  171 (208)
Q Consensus       159 i~~~~~~l~~~~~  171 (208)
                      +.++++.+...++
T Consensus       153 i~dLld~v~~~l~  165 (444)
T COG1160         153 IGDLLDAVLELLP  165 (444)
T ss_pred             HHHHHHHHHhhcC
Confidence            9999999999985

>cd00880 Era_like Era (E

Probab=99.85  E-value=4.4e-20  Score=129.81  Aligned_cols=152  Identities=20%  Similarity=0.178  Sum_probs=103.8

Q ss_pred             EEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-------chhhhccCCcEE
Q 028507           14 FLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-------LIPSYIRDSSVA   85 (208)
Q Consensus        14 vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~d~~   85 (208)
                      ++|++|+|||||++++.+.... .......+............ ...+.+||+||...+..       ....++..+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            5899999999999999976554 23333333333333333321 35799999999766543       333467899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHH---HHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIE---EGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~---~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      ++|+|++++....... +....   ...+.|+++|+||+|+.........   .........+.+++++|++++.|+.++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~---~~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l  155 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELL---RERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDEL  155 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHH---HhcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHH
Confidence            9999999876655544 22222   2246999999999998765433222   112223334579999999999999999


Q ss_pred             HHHHHHHc
Q 028507          163 FRKIAAAL  170 (208)
Q Consensus       163 ~~~l~~~~  170 (208)
                      ++++.+.+
T Consensus       156 ~~~l~~~~  163 (163)
T cd00880         156 REALIEAL  163 (163)
T ss_pred             HHHHHhhC
Confidence            99998753

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.84  E-value=8.1e-20  Score=143.64  Aligned_cols=183  Identities=25%  Similarity=0.213  Sum_probs=134.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhch-----------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-----------   75 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----------   75 (208)
                      ..+||+|+|.|++|||||+|+|++..- ..+..+.++.+.....+.+++.  ++.++||+|..+-....           
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~--~~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGR--KYVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCe--EEEEEECCCCCcccccccceEEEeehhh
Confidence            459999999999999999999997653 5566778888888888888884  59999999965432222           


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH----hc-CCeEEE
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR----EL-NVMFIE  150 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~----~~-~~~~~~  150 (208)
                      ...+..+|++++|+|++.+-  ......+..+...  .+.++++++||+|+.+......++.+....    .. .++++.
T Consensus       255 ~~aI~~a~vvllviDa~~~~--~~qD~~ia~~i~~--~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~  330 (444)
T COG1160         255 LKAIERADVVLLVIDATEGI--SEQDLRIAGLIEE--AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVF  330 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCc--hHHHHHHHHHHHH--cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEE
Confidence            23477899999999999653  3333333333323  348899999999998764444444433322    22 349999


Q ss_pred             eecCCCCChHHHHHHHHHHcCCCccccccccccccccccccccCCC
Q 028507          151 TSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRSTTGNA  196 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (208)
                      +||+++.++.++|+.+...+.....+-++......-......++++
T Consensus       331 iSA~~~~~i~~l~~~i~~~~~~~~~ri~Ts~LN~~l~~a~~~~pP~  376 (444)
T COG1160         331 ISALTGQGLDKLFEAIKEIYECATRRISTSLLNRVLEDAVAKHPPP  376 (444)
T ss_pred             EEecCCCChHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999988888887777766655555555433

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.83  E-value=7.7e-20  Score=148.27  Aligned_cols=155  Identities=18%  Similarity=0.212  Sum_probs=103.2

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcC-------------------------------CCCCCCccceeeEEEEEEEC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKF-------------------------------DNTYQATIGIDFLSKTMYLE   54 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   54 (208)
                      ..+.++|+++|++++|||||+++|++..-                               ..+..+.++++.....+..+
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~   82 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETD   82 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecC
Confidence            35679999999999999999999983211                               11123444455544444444


Q ss_pred             CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC---
Q 028507           55 DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ---  131 (208)
Q Consensus        55 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~---  131 (208)
                        .+.+.||||||+++|.......+..+|++++|+|++++.++.....+...+....+ ..|+++++||+|+.+...   
T Consensus        83 --~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~-~~~iivviNK~Dl~~~~~~~~  159 (425)
T PRK12317         83 --KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLG-INQLIVAINKMDAVNYDEKRY  159 (425)
T ss_pred             --CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcC-CCeEEEEEEccccccccHHHH
Confidence              47899999999998876655667899999999999863233222222222323332 246899999999865221   


Q ss_pred             -CCHHHHHHHHHhcC-----CeEEEeecCCCCChHHHH
Q 028507          132 -VSIEEGEAKSRELN-----VMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       132 -~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~  163 (208)
                       ....++..++...+     ++++++||++|.|+.+.+
T Consensus       160 ~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        160 EEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             HHHHHHHHHHHHhhCCCcCcceEEEeecccCCCccccc
Confidence             11234445554444     479999999999998743

>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=99.83  E-value=7.7e-19  Score=131.34  Aligned_cols=152  Identities=20%  Similarity=0.250  Sum_probs=104.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh-------hchhhhccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR-------SLIPSYIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d   83 (208)
                      +|+++|++|+|||||+++|++........+.++.+.....+.+++  ..+++||+||..+..       ......++++|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            689999999999999999998764333334444455555555665  579999999975322       22345688999


Q ss_pred             EEEEEEeCCChh-hHHHHHHHHHHH----------------------------------------HHh------------
Q 028507           84 VAVVVYDVASRQ-SFLNTSKWIDEV----------------------------------------RTE------------  110 (208)
Q Consensus        84 ~~i~v~d~~~~~-s~~~~~~~~~~i----------------------------------------~~~------------  110 (208)
                      ++++|+|+++++ ....+...+...                                        ...            
T Consensus        80 ~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~  159 (233)
T cd01896          80 LILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIRE  159 (233)
T ss_pred             EEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEcc
Confidence            999999998765 232222222111                                        000            


Q ss_pred             -----------c--CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          111 -----------R--GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       111 -----------~--~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                                 .  ...+|+++|+||+|+..     ..+...++..  ..++++||+++.|++++|+.|.+.+.
T Consensus       160 ~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L~  226 (233)
T cd01896         160 DITVDDLIDVIEGNRVYIPCLYVYNKIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKLG  226 (233)
T ss_pred             CCCHHHHHHHHhCCceEeeEEEEEECccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHhC
Confidence                       0  12368999999999853     3344444443  46899999999999999999988663

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.83  E-value=3.6e-19  Score=123.67  Aligned_cols=157  Identities=22%  Similarity=0.301  Sum_probs=117.5

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCC--------C----CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDN--------T----YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~--------~----~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      ..+...||+|.|+.++||||+++++.......        +    ...|...++......  + ...++++|||||++|.
T Consensus         6 ~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~--~-~~~v~LfgtPGq~RF~   82 (187)
T COG2229           6 NKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELD--E-DTGVHLFGTPGQERFK   82 (187)
T ss_pred             ccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEc--C-cceEEEecCCCcHHHH
Confidence            34678999999999999999999998766411        1    112233333332222  2 2579999999999999


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc--CCeEEE
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL--NVMFIE  150 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~  150 (208)
                      -+|..+.+++.++|+++|.+.+..+ .....+..+....  .+|++|.+||.|+.....  .++++......  ..++++
T Consensus        83 fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~a~p--pe~i~e~l~~~~~~~~vi~  157 (187)
T COG2229          83 FMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFDALP--PEKIREALKLELLSVPVIE  157 (187)
T ss_pred             HHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCCCCC--HHHHHHHHHhccCCCceee
Confidence            9999999999999999999998887 4444444444332  299999999999976554  45555554433  789999


Q ss_pred             eecCCCCChHHHHHHHHHH
Q 028507          151 TSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~  169 (208)
                      .++.++++..+.++.+...
T Consensus       158 ~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         158 IDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             eecccchhHHHHHHHHHhh
Confidence            9999999999998888776

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.83  E-value=1.7e-19  Score=146.31  Aligned_cols=154  Identities=18%  Similarity=0.218  Sum_probs=104.5

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhc--CcCC-----------------------------CCCCCccceeeEEEEEEEC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMY--DKFD-----------------------------NTYQATIGIDFLSKTMYLE   54 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   54 (208)
                      ..+.++|+++|+.++|||||+.+|+.  +...                             .+...+.+++.....+..+
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~   83 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETD   83 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccC
Confidence            45679999999999999999999985  2211                             1122344455554444444


Q ss_pred             CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--
Q 028507           55 DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--  131 (208)
Q Consensus        55 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--  131 (208)
                        .+.+.|||+||+++|.......+..+|++|+|+|+++.++.... ..+...+....+ ..++++++||+|+.+...  
T Consensus        84 --~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~-~~~iIVviNK~Dl~~~~~~~  160 (426)
T TIGR00483        84 --KYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLG-INQLIVAINKMDSVNYDEEE  160 (426)
T ss_pred             --CeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcC-CCeEEEEEEChhccCccHHH
Confidence              47899999999999877666678899999999999976432111 111112222332 357899999999964221  


Q ss_pred             --CCHHHHHHHHHhcC-----CeEEEeecCCCCChHHH
Q 028507          132 --VSIEEGEAKSRELN-----VMFIETSAKAGFNIKPL  162 (208)
Q Consensus       132 --~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~  162 (208)
                        ....+...++...+     ++++++||++|.|+.+.
T Consensus       161 ~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~  198 (426)
T TIGR00483       161 FEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKK  198 (426)
T ss_pred             HHHHHHHHHHHHHHcCCCcccceEEEeecccccccccc
Confidence              11344555666555     57999999999999863

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.83  E-value=5.8e-19  Score=150.96  Aligned_cols=153  Identities=20%  Similarity=0.165  Sum_probs=106.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh--------hhhchhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER--------FRSLIPSY   78 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~   78 (208)
                      ...+|+|+|.+|||||||+|+|++... .....++.+.+.......+.+  ..+.+|||||...        +......+
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~  351 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQIA  351 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHHHH
Confidence            347899999999999999999998764 223345555555554555555  4699999999653        23344556


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAG  156 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~  156 (208)
                      +..+|++|+|+|+++.  +.... .|...++.   .++|+++|+||+|+....    .....+ ..++. ..+++||++|
T Consensus       352 ~~~aD~iL~VvDa~~~--~~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~~~----~~~~~~-~~lg~~~~~~iSA~~g  421 (712)
T PRK09518        352 VSLADAVVFVVDGQVG--LTSTDERIVRMLRR---AGKPVVLAVNKIDDQASE----YDAAEF-WKLGLGEPYPISAMHG  421 (712)
T ss_pred             HHhCCEEEEEEECCCC--CCHHHHHHHHHHHh---cCCCEEEEEECcccccch----hhHHHH-HHcCCCCeEEEECCCC
Confidence            7899999999999853  22222 33344432   469999999999985422    111222 12333 4678999999


Q ss_pred             CChHHHHHHHHHHcCC
Q 028507          157 FNIKPLFRKIAAALPG  172 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~  172 (208)
                      .|+.++|++|.+.+.+
T Consensus       422 ~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        422 RGVGDLLDEALDSLKV  437 (712)
T ss_pred             CCchHHHHHHHHhccc
Confidence            9999999999998865

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.83  E-value=3.2e-19  Score=140.68  Aligned_cols=154  Identities=23%  Similarity=0.260  Sum_probs=118.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchh--------hh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIP--------SY   78 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~--------~~   78 (208)
                      ..++++++|.||+|||||+|.|++... ..+..+.++.+.....+.++|  +.+.++||+|..+.....+        ..
T Consensus       216 ~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs~~~  293 (454)
T COG0486         216 EGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERAKKA  293 (454)
T ss_pred             cCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHHHHH
Confidence            358999999999999999999997654 456778889999999999998  7899999999776444333        24


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      +..+|.+++|+|.+.+.+-..... +.    ....+.|+++|.||.|+.........     ....+.+++.+|+++++|
T Consensus       294 i~~ADlvL~v~D~~~~~~~~d~~~-~~----~~~~~~~~i~v~NK~DL~~~~~~~~~-----~~~~~~~~i~iSa~t~~G  363 (454)
T COG0486         294 IEEADLVLFVLDASQPLDKEDLAL-IE----LLPKKKPIIVVLNKADLVSKIELESE-----KLANGDAIISISAKTGEG  363 (454)
T ss_pred             HHhCCEEEEEEeCCCCCchhhHHH-HH----hcccCCCEEEEEechhcccccccchh-----hccCCCceEEEEecCccC
Confidence            789999999999997622222111 11    33456899999999999765542211     122345799999999999


Q ss_pred             hHHHHHHHHHHcCCC
Q 028507          159 IKPLFRKIAAALPGM  173 (208)
Q Consensus       159 i~~~~~~l~~~~~~~  173 (208)
                      ++.+.+.|.+.+...
T Consensus       364 l~~L~~~i~~~~~~~  378 (454)
T COG0486         364 LDALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999999888655

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.82  E-value=6.8e-19  Score=128.02  Aligned_cols=146  Identities=16%  Similarity=0.111  Sum_probs=95.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      ++++|+++|+.++|||||+++|++...                ..+..+..+++.....  +......+.++||||+..|
T Consensus         1 ~~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~--~~~~~~~i~~iDtPG~~~~   78 (195)
T cd01884           1 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVE--YETANRHYAHVDCPGHADY   78 (195)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeE--ecCCCeEEEEEECcCHHHH
Confidence            358999999999999999999985310                0111233333333333  3334467899999999988


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCC---CHHHHHHHHHhcC--
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQV---SIEEGEAKSRELN--  145 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~---~~~~~~~~~~~~~--  145 (208)
                      .......+..+|++++|+|++..-. ......+..+..   .++| +++++||+|+....+.   ...++.......+  
T Consensus        79 ~~~~~~~~~~~D~~ilVvda~~g~~-~~~~~~~~~~~~---~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~  154 (195)
T cd01884          79 IKNMITGAAQMDGAILVVSATDGPM-PQTREHLLLARQ---VGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFD  154 (195)
T ss_pred             HHHHHHHhhhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhccc
Confidence            8877778899999999999985311 112222333322   2366 7788999998632221   1223444444443  


Q ss_pred             ---CeEEEeecCCCCCh
Q 028507          146 ---VMFIETSAKAGFNI  159 (208)
Q Consensus       146 ---~~~~~~sa~~~~~i  159 (208)
                         ++++++||.+|.++
T Consensus       155 ~~~v~iipiSa~~g~n~  171 (195)
T cd01884         155 GDNTPIVRGSALKALEG  171 (195)
T ss_pred             ccCCeEEEeeCccccCC
Confidence               58999999999985

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.82  E-value=3e-19  Score=143.74  Aligned_cols=163  Identities=22%  Similarity=0.189  Sum_probs=106.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCC---CCCCCccceeeEEEEE--------------EE----CC------EEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFD---NTYQATIGIDFLSKTM--------------YL----ED------RTVR   59 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~---~~~~~~~~~~~~~~~~--------------~~----~~------~~~~   59 (208)
                      +++++|+++|++++|||||+++|.+....   .+.....++.......              ..    +.      ....
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRR   81 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccE
Confidence            46799999999999999999999754221   1111111111110000              00    11      1357


Q ss_pred             EEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--CHHHH
Q 028507           60 LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--SIEEG  137 (208)
Q Consensus        60 ~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~~~~~  137 (208)
                      +++||+||+++|...+......+|++++|+|+++........+.+..+ ...+ ..|+++++||+|+.+....  ..+++
T Consensus        82 i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l-~~~g-i~~iIVvvNK~Dl~~~~~~~~~~~~i  159 (406)
T TIGR03680        82 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMAL-EIIG-IKNIVIVQNKIDLVSKEKALENYEEI  159 (406)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHH-HHcC-CCeEEEEEEccccCCHHHHHHHHHHH
Confidence            999999999999888888888999999999999642112222223323 2222 2468899999998753321  12333


Q ss_pred             HHHHHhc---CCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          138 EAKSREL---NVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       138 ~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ..+....   +++++++||++|+|+++++++|...++
T Consensus       160 ~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       160 KEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            3333332   568999999999999999999998775

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.82  E-value=3.2e-19  Score=148.69  Aligned_cols=158  Identities=18%  Similarity=0.265  Sum_probs=111.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc--CcCCCC--------------CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY--DKFDNT--------------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS   73 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~--~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   73 (208)
                      -+|+|+|+.++|||||+++|+.  +.+...              .....++......+.+.+  ++++||||||+.+|..
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~--~kinlIDTPGh~DF~~   79 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNG--TKINIVDTPGHADFGG   79 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECC--EEEEEEECCCHHHHHH
Confidence            3799999999999999999985  333211              112233333334445544  7899999999999999


Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC-CHHHHHHHHH-------hcC
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV-SIEEGEAKSR-------ELN  145 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~-~~~~~~~~~~-------~~~  145 (208)
                      .+..++..+|++++|+|+++. .......++..+..   .++|+++++||+|+...+.. ...+...+..       ...
T Consensus        80 ev~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~  155 (594)
T TIGR01394        80 EVERVLGMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLD  155 (594)
T ss_pred             HHHHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHH---CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhcccccccc
Confidence            899999999999999999853 23334455554443   35899999999998643311 1223333332       235


Q ss_pred             CeEEEeecCCCC----------ChHHHHHHHHHHcCCC
Q 028507          146 VMFIETSAKAGF----------NIKPLFRKIAAALPGM  173 (208)
Q Consensus       146 ~~~~~~sa~~~~----------~i~~~~~~l~~~~~~~  173 (208)
                      ++++++||++|.          ++..+|+.|.+.++.-
T Consensus       156 ~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       156 FPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             CcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence            689999999996          7999999999988744

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.

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

Probab=99.82  E-value=7.1e-19  Score=146.10  Aligned_cols=156  Identities=21%  Similarity=0.204  Sum_probs=102.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCcc----ceeeEEEEE------------EECCEEEEEEEEEcCCchhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATI----GIDFLSKTM------------YLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~----~~~~~~~~~------------~~~~~~~~~~i~D~~G~~~~   71 (208)
                      +..-|+++|++++|||||+++|.+..+......+.    +........            .++.....+.||||||++.|
T Consensus         3 r~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f   82 (590)
T TIGR00491         3 RSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAF   82 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhH
Confidence            44579999999999999999999877643322211    211111110            00001123899999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC----C--------CHHH
Q 028507           72 RSLIPSYIRDSSVAVVVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ----V--------SIEE  136 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~----~--------~~~~  136 (208)
                      ..++..++..+|++++|+|+++   +++++.+..    +.   ..++|+++++||+|+.+...    .        ....
T Consensus        83 ~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~----l~---~~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~  155 (590)
T TIGR00491        83 TNLRKRGGALADLAILIVDINEGFKPQTQEALNI----LR---MYKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQ  155 (590)
T ss_pred             HHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHH----HH---HcCCCEEEEEECCCccchhhhccCchHHHHHHhhhHH
Confidence            9999889999999999999986   444444322    22   13589999999999864210    0        0000


Q ss_pred             HH-----------HHHHh-------------c--CCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          137 GE-----------AKSRE-------------L--NVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       137 ~~-----------~~~~~-------------~--~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ..           ....+             +  ..+++++||++|+|+++++.+|....
T Consensus       156 v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       156 VQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             HHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence            00           00111             1  25899999999999999999887544

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.

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.82  E-value=8.1e-22  Score=136.48  Aligned_cols=167  Identities=35%  Similarity=0.542  Sum_probs=144.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCE-EEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR-TVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ...-+++.|+|.-|+|||+++.+++...+...+..+++.++......++.. .+++.+||..|++++..+..-+++.+++
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            345689999999999999999999999999999999999988888777664 4579999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCccc-CCCHHHHHHHHHhcCC-eEEEeecCCCCC
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTER----GSDVIIVLVGNKTDLVEKR-QVSIEEGEAKSRELNV-MFIETSAKAGFN  158 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~piivv~nK~D~~~~~-~~~~~~~~~~~~~~~~-~~~~~sa~~~~~  158 (208)
                      .++|||+++..+|+.+..|.+.+....    +.++|++++.||+|..... .........+.+++|+ ..+++|++.+.+
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkn  181 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKN  181 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccC
Confidence            999999999999999999999986543    3568899999999974322 2234677888999998 899999999999


Q ss_pred             hHHHHHHHHHHcCC
Q 028507          159 IKPLFRKIAAALPG  172 (208)
Q Consensus       159 i~~~~~~l~~~~~~  172 (208)
                      +.|+-..|.+++.-
T Consensus       182 i~Ea~r~lVe~~lv  195 (229)
T KOG4423|consen  182 IPEAQRELVEKILV  195 (229)
T ss_pred             hhHHHHHHHHHHHh
Confidence            99999999887753

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

Probab=99.82  E-value=5e-19  Score=145.05  Aligned_cols=159  Identities=18%  Similarity=0.224  Sum_probs=125.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc------hhhh-c
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL------IPSY-I   79 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~-~   79 (208)
                      +++++++++|+||+|||||+|+|++.+......|..+.+.....+...++  .++++|+||.-.+...      .+.+ +
T Consensus         1 ~~~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~--~i~ivDLPG~YSL~~~S~DE~Var~~ll   78 (653)
T COG0370           1 MKKLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGH--EIEIVDLPGTYSLTAYSEDEKVARDFLL   78 (653)
T ss_pred             CCcceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCc--eEEEEeCCCcCCCCCCCchHHHHHHHHh
Confidence            45678999999999999999999998887888899888888888888775  4999999995543332      1222 3


Q ss_pred             -cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           80 -RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        80 -~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                       ...|++|-|+|+++.+.-..+.-.+.+      -+.|++++.|++|..+.+.+. .+.++..+.+|+++++++|+.|.|
T Consensus        79 ~~~~D~ivnVvDAtnLeRnLyltlQLlE------~g~p~ilaLNm~D~A~~~Gi~-ID~~~L~~~LGvPVv~tvA~~g~G  151 (653)
T COG0370          79 EGKPDLIVNVVDATNLERNLYLTLQLLE------LGIPMILALNMIDEAKKRGIR-IDIEKLSKLLGVPVVPTVAKRGEG  151 (653)
T ss_pred             cCCCCEEEEEcccchHHHHHHHHHHHHH------cCCCeEEEeccHhhHHhcCCc-ccHHHHHHHhCCCEEEEEeecCCC
Confidence             467999999999977654443322222      358999999999998776653 455778889999999999999999


Q ss_pred             hHHHHHHHHHHcCCCc
Q 028507          159 IKPLFRKIAAALPGME  174 (208)
Q Consensus       159 i~~~~~~l~~~~~~~~  174 (208)
                      +++++..+.+......
T Consensus       152 ~~~l~~~i~~~~~~~~  167 (653)
T COG0370         152 LEELKRAIIELAESKT  167 (653)
T ss_pred             HHHHHHHHHHhccccc
Confidence            9999999988765443

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.81  E-value=9.4e-19  Score=146.52  Aligned_cols=158  Identities=17%  Similarity=0.156  Sum_probs=108.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC---cCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD---KFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      -|+++|+.++|||||+++|++.   .+..+.....+++.....+...++ ..+.|||+||+++|.......+.++|++++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g-~~i~~IDtPGhe~fi~~m~~g~~~~D~~lL   80 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDG-RVLGFIDVPGHEKFLSNMLAGVGGIDHALL   80 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCC-cEEEEEECCCHHHHHHHHHHHhhcCCEEEE
Confidence            4789999999999999999863   334444445555544444433222 358999999999997777777899999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCCC--HHHHHHHHHhcC---CeEEEeecCCCCChHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQVS--IEEGEAKSRELN---VMFIETSAKAGFNIKP  161 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~~--~~~~~~~~~~~~---~~~~~~sa~~~~~i~~  161 (208)
                      |+|+++.-. ....+.+. +....  ++| +++|+||+|+.+.....  ..+...+....+   .+++++|+++|.|+++
T Consensus        81 VVda~eg~~-~qT~ehl~-il~~l--gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~  156 (614)
T PRK10512         81 VVACDDGVM-AQTREHLA-ILQLT--GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDA  156 (614)
T ss_pred             EEECCCCCc-HHHHHHHH-HHHHc--CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHH
Confidence            999986211 11112222 22222  255 57899999997533211  233444444444   5899999999999999


Q ss_pred             HHHHHHHHcCCC
Q 028507          162 LFRKIAAALPGM  173 (208)
Q Consensus       162 ~~~~l~~~~~~~  173 (208)
                      +++.|.......
T Consensus       157 L~~~L~~~~~~~  168 (614)
T PRK10512        157 LREHLLQLPERE  168 (614)
T ss_pred             HHHHHHHhhccc
Confidence            999998876544

>PRK10218 GTP-binding protein; Provisional

Probab=99.81  E-value=1.4e-18  Score=144.71  Aligned_cols=161  Identities=19%  Similarity=0.266  Sum_probs=113.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc--CcCCCC------------CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY--DKFDNT------------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL   74 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~--~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   74 (208)
                      -.+|+|+|+.++|||||+++|+.  +.+...            .....+++.......+..+.+++++|||||+.+|...
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~   84 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGE   84 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHH
Confidence            36899999999999999999996  333221            1233445555555555555588999999999999999


Q ss_pred             hhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC-CCHHHHHHHHHh-------cCC
Q 028507           75 IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ-VSIEEGEAKSRE-------LNV  146 (208)
Q Consensus        75 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~-~~~~~~~~~~~~-------~~~  146 (208)
                      +..+++.+|++|+|+|+++.... ....++..+..   .++|+++++||+|+...+. ....++......       ..+
T Consensus        85 v~~~l~~aDg~ILVVDa~~G~~~-qt~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~  160 (607)
T PRK10218         85 VERVMSMVDSVLLVVDAFDGPMP-QTRFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDF  160 (607)
T ss_pred             HHHHHHhCCEEEEEEecccCccH-HHHHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCC
Confidence            99999999999999999863221 22233333222   3588899999999864332 112233333211       346


Q ss_pred             eEEEeecCCCC----------ChHHHHHHHHHHcCCC
Q 028507          147 MFIETSAKAGF----------NIKPLFRKIAAALPGM  173 (208)
Q Consensus       147 ~~~~~sa~~~~----------~i~~~~~~l~~~~~~~  173 (208)
                      +++.+||.+|.          ++..+++.|.+.++.-
T Consensus       161 PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P  197 (607)
T PRK10218        161 PIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAP  197 (607)
T ss_pred             CEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCC
Confidence            89999999998          5889999999988744

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.81  E-value=5.3e-19  Score=130.33  Aligned_cols=147  Identities=22%  Similarity=0.257  Sum_probs=94.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC--C-----------------------------CCCCCccceeeEEEEEEECCEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF--D-----------------------------NTYQATIGIDFLSKTMYLEDRTVR   59 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~   59 (208)
                      +|+|+|++|+|||||+++|+...-  .                             .+..+..+++.....+...+  ..
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~--~~   78 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPK--RK   78 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCC--ce
Confidence            689999999999999999974321  1                             01113334444444444444  56


Q ss_pred             EEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC----CHH
Q 028507           60 LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV----SIE  135 (208)
Q Consensus        60 ~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~----~~~  135 (208)
                      +.+|||||+.+|.......+..+|++|+|+|++++..-. ... ...+....+ ..++++|+||+|+.+....    ...
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~-~~~-~~~~~~~~~-~~~iIvviNK~D~~~~~~~~~~~i~~  155 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQ-TRR-HSYILSLLG-IRHVVVAVNKMDLVDYSEEVFEEIVA  155 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHh-HHH-HHHHHHHcC-CCcEEEEEEchhcccCCHHHHHHHHH
Confidence            899999999988766666789999999999998642211 111 112222222 1357788999998642211    123


Q ss_pred             HHHHHHHhcCC---eEEEeecCCCCChHHH
Q 028507          136 EGEAKSRELNV---MFIETSAKAGFNIKPL  162 (208)
Q Consensus       136 ~~~~~~~~~~~---~~~~~sa~~~~~i~~~  162 (208)
                      +...++..+++   +++++||+++.|+.+.
T Consensus       156 ~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         156 DYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            34444555553   5899999999998753

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.

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

Probab=99.81  E-value=1e-18  Score=140.58  Aligned_cols=165  Identities=21%  Similarity=0.180  Sum_probs=105.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcC---CCCCCCccceeeEEEEEE------------------EC--C----EEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDFLSKTMY------------------LE--D----RTV   58 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~~~~------------------~~--~----~~~   58 (208)
                      ..++++|+++|+.++|||||+.+|.+...   ..+.....++........                  .+  +    ...
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLR   85 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccccc
Confidence            35679999999999999999999965322   111122222221111000                  00  0    135


Q ss_pred             EEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--CHHH
Q 028507           59 RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--SIEE  136 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~~~~  136 (208)
                      .++|||+||+++|..........+|++++|+|++++.........+..+. ..+ ..|+++|+||+|+.+....  ..++
T Consensus        86 ~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~-~~~-i~~iiVVlNK~Dl~~~~~~~~~~~~  163 (411)
T PRK04000         86 RVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALD-IIG-IKNIVIVQNKIDLVSKERALENYEQ  163 (411)
T ss_pred             EEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHH-HcC-CCcEEEEEEeeccccchhHHHHHHH
Confidence            79999999999887766666778899999999995421111111222222 221 2468899999999754332  1233


Q ss_pred             HHHHHHhc---CCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          137 GEAKSREL---NVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       137 ~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ...++...   +.+++++||+++.|+++++++|...++.
T Consensus       164 i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        164 IKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             HHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCC
Confidence            34444332   4689999999999999999999988754

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

Probab=99.81  E-value=8e-19  Score=119.30  Aligned_cols=135  Identities=21%  Similarity=0.287  Sum_probs=98.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCC----chhhhhchhhhccCCcEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG----QERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----~~~~~~~~~~~~~~~d~~i   86 (208)
                      ||+++|+.|+|||||+++|.+...  .+..|..+.            +.-.++||||    +..+..-.......+|.++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~------------~~~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIE------------YYDNTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeE------------ecccEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            799999999999999999998665  333333221            1225599999    3334444444456999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|.|++++.+.-.     ..+...  -+.|+|=|+||+|+.. .....+.++.+....|+ .+|++|+.+|+|++++.++
T Consensus        69 ll~dat~~~~~~p-----P~fa~~--f~~pvIGVITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~  140 (143)
T PF10662_consen   69 LLQDATEPRSVFP-----PGFASM--FNKPVIGVITKIDLPS-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDY  140 (143)
T ss_pred             EEecCCCCCccCC-----chhhcc--cCCCEEEEEECccCcc-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHH
Confidence            9999997643221     112222  2489999999999973 23356778888888888 7899999999999999998


Q ss_pred             HH
Q 028507          166 IA  167 (208)
Q Consensus       166 l~  167 (208)
                      |.
T Consensus       141 L~  142 (143)
T PF10662_consen  141 LE  142 (143)
T ss_pred             Hh
Confidence            75

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

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.80  E-value=6.1e-19  Score=117.02  Aligned_cols=159  Identities=21%  Similarity=0.263  Sum_probs=119.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      .-+++||.++|..++|||||+..|.+... ....|+.+...  +.+... +.+++++||.+|+...+..|..|+.+.|++
T Consensus        14 t~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~GFn~--k~v~~~-g~f~LnvwDiGGqr~IRpyWsNYyenvd~l   89 (185)
T KOG0074|consen   14 TRREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNGFNT--KKVEYD-GTFHLNVWDIGGQRGIRPYWSNYYENVDGL   89 (185)
T ss_pred             CcceEEEEEEecCCCcchhHHHHHccCCh-hhccccCCcce--EEEeec-CcEEEEEEecCCccccchhhhhhhhccceE
Confidence            36789999999999999999999986653 33445555433  333333 347899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-----CCeEEEeecCCCCCh
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-----NVMFIETSAKAGFNI  159 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~sa~~~~~i  159 (208)
                      |+|+|.+|...|+++...+-++... ....+|+.+..||.|+..+....  +....++..     -+.+-++|+.+++++
T Consensus        90 IyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~e--eia~klnl~~lrdRswhIq~csals~eg~  167 (185)
T KOG0074|consen   90 IYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVE--EIALKLNLAGLRDRSWHIQECSALSLEGS  167 (185)
T ss_pred             EEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchH--HHHHhcchhhhhhceEEeeeCccccccCc
Confidence            9999999998899876666665443 33669999999999986544322  222222222     247889999999999


Q ss_pred             HHHHHHHHHHc
Q 028507          160 KPLFRKIAAAL  170 (208)
Q Consensus       160 ~~~~~~l~~~~  170 (208)
                      ..-.+|+....
T Consensus       168 ~dg~~wv~sn~  178 (185)
T KOG0074|consen  168 TDGSDWVQSNP  178 (185)
T ss_pred             cCcchhhhcCC
Confidence            98888887544

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.80  E-value=2.1e-18  Score=122.54  Aligned_cols=151  Identities=23%  Similarity=0.322  Sum_probs=97.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh----------hhhchhhhcc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER----------FRSLIPSYIR   80 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~~~~~   80 (208)
                      .|+++|.+|+|||||++.+.++.+.....++.+.+........++   .+.+||+||...          +......++.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            489999999999999999996655444444444444443444433   799999999432          3333333333


Q ss_pred             ---CCcEEEEEEeCCChhhH--HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHHHH--hcCCeEEEe
Q 028507           81 ---DSSVAVVVYDVASRQSF--LNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAKSR--ELNVMFIET  151 (208)
Q Consensus        81 ---~~d~~i~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~~~--~~~~~~~~~  151 (208)
                         ..+++++++|.++..+.  ..+..|+.   .   ...|+++++||+|+.......  .........  ....+++++
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~---~---~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  151 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLE---E---LGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILF  151 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHH---H---cCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEE
Confidence               46789999999765221  12223332   2   238999999999986433211  122222222  234589999


Q ss_pred             ecCCCCChHHHHHHHHHHc
Q 028507          152 SAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~  170 (208)
                      |++++.++.+++++|.+.+
T Consensus       152 Sa~~~~~~~~l~~~l~~~~  170 (170)
T cd01876         152 SSLKGQGIDELRALIEKWL  170 (170)
T ss_pred             ecCCCCCHHHHHHHHHHhC
Confidence            9999999999999998753

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.80  E-value=7e-18  Score=126.34  Aligned_cols=155  Identities=20%  Similarity=0.219  Sum_probs=105.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC--------CC----------CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF--------DN----------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~--------~~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      +|+++|+.|+|||||+++|+...-        ..          ......++......+.+.+  +++++|||||+.+|.
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~--~~i~liDTPG~~~f~   78 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWED--TKVNLIDTPGHMDFI   78 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECC--EEEEEEeCCCccchH
Confidence            589999999999999999985311        00          0111222333334444444  689999999999998


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc-----------------------
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK-----------------------  129 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~-----------------------  129 (208)
                      ..+..+++.+|++++|+|+++.... ....++..+..   .++|+++++||+|+...                       
T Consensus        79 ~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~~a~~~~~~~~i~~~~~~~~~~~~~p  154 (237)
T cd04168          79 AEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRAGADLEKVYQEIKEKLSSDIVPMQKV  154 (237)
T ss_pred             HHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECccccCCCHHHHHHHHHHHHCCCeEEEECC
Confidence            8888899999999999999865332 23344444433   35899999999998631                       


Q ss_pred             ----------------------------------cCCCHHHHHHHHHh---cC--CeEEEeecCCCCChHHHHHHHHHHc
Q 028507          130 ----------------------------------RQVSIEEGEAKSRE---LN--VMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       130 ----------------------------------~~~~~~~~~~~~~~---~~--~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                                                        .+++.++.....+.   .+  +|++..||.++.|+..+++.|.+.+
T Consensus       155 ~~~~~~~~~~~~~~~l~e~vae~dd~l~e~yl~~~~~~~~el~~~l~~~~~~~~~~Pv~~gsa~~~~Gv~~ll~~~~~~~  234 (237)
T cd04168         155 GLAPNICETNEIDDEFWETLAEGDDELLEKYLEGGPIEELELDNELSARIAKRKVFPVYHGSALKGIGIEELLEGITKLF  234 (237)
T ss_pred             cEeeeeeeeeeccHHHHHHHhcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCeEEEEEccccCCcCHHHHHHHHHHhc
Confidence                                              01111221111111   01  4888899999999999999999887


Q ss_pred             C
Q 028507          171 P  171 (208)
Q Consensus       171 ~  171 (208)
                      +
T Consensus       235 p  235 (237)
T cd04168         235 P  235 (237)
T ss_pred             C
Confidence            5

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.80  E-value=4.4e-19  Score=142.21  Aligned_cols=168  Identities=25%  Similarity=0.311  Sum_probs=126.4

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |+..+..+.+||+++|..|+||||||-+|+...++..-.+-...-  .....+....+..+|+|++..+.-.......++
T Consensus         1 ~~~~~t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i--~IPadvtPe~vpt~ivD~ss~~~~~~~l~~Eir   78 (625)
T KOG1707|consen    1 MSDDETLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRI--LIPADVTPENVPTSIVDTSSDSDDRLCLRKEIR   78 (625)
T ss_pred             CCCccCccceEEEEECCCCccHHHHHHHHHhhhccccccccCCcc--ccCCccCcCcCceEEEecccccchhHHHHHHHh
Confidence            677788899999999999999999999999998865544332211  111233334467999999865554455566789


Q ss_pred             CCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHH-HHHHHHhcCC--eEEEeecC
Q 028507           81 DSSVAVVVYDVASRQSFLNT-SKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEE-GEAKSRELNV--MFIETSAK  154 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~-~~~~~~~~~~--~~~~~sa~  154 (208)
                      .+|++++||+++++.+++.+ ..|+..+++..+  .++|||+|+||.|..+....+.+. ......++.-  .-++|||+
T Consensus        79 kA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~  158 (625)
T KOG1707|consen   79 KADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSAL  158 (625)
T ss_pred             hcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhh
Confidence            99999999999999999996 678888887764  679999999999997765543333 3333333332  56899999


Q ss_pred             CCCChHHHHHHHHHHc
Q 028507          155 AGFNIKPLFRKIAAAL  170 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~~  170 (208)
                      +..++.++|..-.+.+
T Consensus       159 ~~~n~~e~fYyaqKaV  174 (625)
T KOG1707|consen  159 TLANVSELFYYAQKAV  174 (625)
T ss_pred             hhhhhHhhhhhhhhee
Confidence            9999999998766654

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.79  E-value=2.3e-19  Score=119.33  Aligned_cols=160  Identities=23%  Similarity=0.341  Sum_probs=116.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ++++|.++|..|+||||++.++.-+..... .|+.+...  ..+..  ++.++.+||..|+-..+..|+.++.+.|++|+
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgevvtt-kPtigfnv--e~v~y--KNLk~~vwdLggqtSirPyWRcYy~dt~avIy   91 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEVVTT-KPTIGFNV--ETVPY--KNLKFQVWDLGGQTSIRPYWRCYYADTDAVIY   91 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCccccc-CCCCCcCc--ccccc--ccccceeeEccCcccccHHHHHHhcccceEEE
Confidence            789999999999999999998886665333 34444332  33333  45889999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHH-HHhcCCCCcEEEEEeCCCCCcccCCCHH---HHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVEKRQVSIE---EGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i-~~~~~~~~piivv~nK~D~~~~~~~~~~---~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      |+|.+|.+.+......+..+ ......+..+++++||.|.......++.   ......+..-+.++++||..|+|+++.+
T Consensus        92 VVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~  171 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAM  171 (182)
T ss_pred             EEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHH
Confidence            99999988776654433333 3333344778889999998543221111   1111122223689999999999999999


Q ss_pred             HHHHHHcCC
Q 028507          164 RKIAAALPG  172 (208)
Q Consensus       164 ~~l~~~~~~  172 (208)
                      +||.+.+..
T Consensus       172 DWL~~~l~~  180 (182)
T KOG0072|consen  172 DWLQRPLKS  180 (182)
T ss_pred             HHHHHHHhc
Confidence            999988754

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

Probab=99.79  E-value=1.6e-18  Score=128.71  Aligned_cols=146  Identities=21%  Similarity=0.205  Sum_probs=93.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc--C-----------------------------CCCCCCccceeeEEEEEEECCEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK--F-----------------------------DNTYQATIGIDFLSKTMYLEDRTVR   59 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~   59 (208)
                      +|+++|+.++|||||+.+|+...  .                             ..+..+.++++.....+.+.+  .+
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~--~~   78 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEK--YR   78 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCC--eE
Confidence            58999999999999999986321  0                             011123334444445555544  67


Q ss_pred             EEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhh-----H-HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc--C
Q 028507           60 LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQS-----F-LNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR--Q  131 (208)
Q Consensus        60 ~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s-----~-~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~--~  131 (208)
                      +.+|||||+..|.......+..+|++|+|+|+++...     . ......+... ... ...|+++++||+|+....  .
T Consensus        79 i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~iiivvNK~Dl~~~~~~~  156 (219)
T cd01883          79 FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLA-RTL-GVKQLIVAVNKMDDVTVNWSE  156 (219)
T ss_pred             EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHH-HHc-CCCeEEEEEEccccccccccH
Confidence            9999999998887766677889999999999987421     1 1112222222 222 226789999999987321  1


Q ss_pred             CC----HHHHHHHHHhcC-----CeEEEeecCCCCChH
Q 028507          132 VS----IEEGEAKSRELN-----VMFIETSAKAGFNIK  160 (208)
Q Consensus       132 ~~----~~~~~~~~~~~~-----~~~~~~sa~~~~~i~  160 (208)
                      ..    ..++.......+     ++++++||++|.|+.
T Consensus       157 ~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         157 ERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            11    122222333433     579999999999986

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

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.79  E-value=7.8e-18  Score=140.36  Aligned_cols=156  Identities=22%  Similarity=0.268  Sum_probs=101.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCC----ccceeeEEEEEE--ECCEE-----E-----EEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA----TIGIDFLSKTMY--LEDRT-----V-----RLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~----~~~~~~~~~~~~--~~~~~-----~-----~~~i~D~~G~~~   70 (208)
                      .+...|+++|++++|||||+++|.+..+......    +.+.+.......  ..+..     .     .++||||||++.
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHH
Confidence            5667899999999999999999986554322221    222111111100  00111     1     278999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC----C--------HH
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV----S--------IE  135 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~----~--------~~  135 (208)
                      |..++...+..+|++++|+|+++   +++++.+..    +..   .++|+++++||+|+......    .        ..
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~  156 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQ  156 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhH
Confidence            99988888899999999999986   555554432    221   35899999999998521100    0        00


Q ss_pred             -----------HHHHHHHhc---------------CCeEEEeecCCCCChHHHHHHHHHH
Q 028507          136 -----------EGEAKSREL---------------NVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       136 -----------~~~~~~~~~---------------~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                                 +........               ..+++++||++|.|+.++++.+...
T Consensus       157 ~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~  216 (586)
T PRK04004        157 RVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGL  216 (586)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHH
Confidence                       011111111               2478999999999999999887653

>cd04167 Snu114p Snu114p subfamily

Probab=99.78  E-value=3.5e-18  Score=126.49  Aligned_cols=113  Identities=25%  Similarity=0.295  Sum_probs=78.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCC-------------------CCCccceeeEEEEEEE---CCEEEEEEEEEcCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNT-------------------YQATIGIDFLSKTMYL---EDRTVRLQLWDTAGQ   68 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~-------------------~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~   68 (208)
                      +|+|+|+.|+|||||+++|+.......                   .....++......+.+   ++..+.+.+|||||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            689999999999999999986543211                   0011111111122211   345688999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      .+|......++..+|++|+|+|+++..+... ..++.....   .++|+++++||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            9998888888999999999999986554432 233333322   348999999999985

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.

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

Probab=99.78  E-value=5.5e-18  Score=127.15  Aligned_cols=155  Identities=17%  Similarity=0.183  Sum_probs=118.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-------chhhhccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-------LIPSYIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~d   83 (208)
                      .+.+||.|++|||||++.|...+......++++.....-.+.+++.. .+.+-|.||.-+-..       .+..++..++
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~-q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~  276 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFS-QITVADIPGIIEGAHMNKGLGYKFLRHIERCK  276 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccc-eeEeccCccccccccccCcccHHHHHHHHhhc
Confidence            46799999999999999999888766666666666666666666543 499999999554222       2344578999


Q ss_pred             EEEEEEeCCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCC
Q 028507           84 VAVVVYDVASR---QSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGF  157 (208)
Q Consensus        84 ~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~  157 (208)
                      .++||+|++.+   +.++.++.+..++..+..  .+.|.++|+||+|+.+..   ......++..+.- .++++||++++
T Consensus       277 ~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae---~~~l~~L~~~lq~~~V~pvsA~~~e  353 (366)
T KOG1489|consen  277 GLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE---KNLLSSLAKRLQNPHVVPVSAKSGE  353 (366)
T ss_pred             eEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH---HHHHHHHHHHcCCCcEEEeeecccc
Confidence            99999999988   788888887777766553  568899999999985322   1223455555554 49999999999


Q ss_pred             ChHHHHHHHHHH
Q 028507          158 NIKPLFRKIAAA  169 (208)
Q Consensus       158 ~i~~~~~~l~~~  169 (208)
                      ++.++++.|.+.
T Consensus       354 gl~~ll~~lr~~  365 (366)
T KOG1489|consen  354 GLEELLNGLREL  365 (366)
T ss_pred             chHHHHHHHhhc
Confidence            999999988764

>PRK12736 elongation factor Tu; Reviewed

Probab=99.78  E-value=1.1e-17  Score=134.18  Aligned_cols=159  Identities=18%  Similarity=0.163  Sum_probs=105.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .++++|+++|+.++|||||+++|++...                ..+.....+++.  ....+......+.+|||||+.+
T Consensus        10 k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~--~~~~~~~~~~~i~~iDtPGh~~   87 (394)
T PRK12736         10 KPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINT--AHVEYETEKRHYAHVDCPGHAD   87 (394)
T ss_pred             CCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEE--EeeEecCCCcEEEEEECCCHHH
Confidence            4679999999999999999999985211                111123333333  3333433446789999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCCC---HHHHHHHHHhcC-
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQVS---IEEGEAKSRELN-  145 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~~---~~~~~~~~~~~~-  145 (208)
                      |.......+..+|++++|+|+++.-.. ...+.+..+..   .++| +++++||+|+.+..+..   ..+...++...+ 
T Consensus        88 f~~~~~~~~~~~d~~llVvd~~~g~~~-~t~~~~~~~~~---~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~  163 (394)
T PRK12736         88 YVKNMITGAAQMDGAILVVAATDGPMP-QTREHILLARQ---VGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDF  163 (394)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCch-hHHHHHHHHHH---cCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCC
Confidence            877777677899999999999853111 11222222222   2477 67889999986433221   224445544444 


Q ss_pred             ----CeEEEeecCCCC--------ChHHHHHHHHHHcC
Q 028507          146 ----VMFIETSAKAGF--------NIKPLFRKIAAALP  171 (208)
Q Consensus       146 ----~~~~~~sa~~~~--------~i~~~~~~l~~~~~  171 (208)
                          ++++++|+++|.        ++.++++.+...++
T Consensus       164 ~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        164 PGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             CcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence                489999999983        57788888888775

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=2e-17  Score=117.53  Aligned_cols=159  Identities=21%  Similarity=0.220  Sum_probs=108.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCC----------chhhhhchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG----------QERFRSLIP   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~   76 (208)
                      .....|+++|.+|||||||||+|++++-......+.|.+.....+.+++.   +.++|.||          .+.+..+..
T Consensus        22 ~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~   98 (200)
T COG0218          22 DDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIE   98 (200)
T ss_pred             CCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHH
Confidence            45679999999999999999999998854445556666777777777764   89999999          333455555


Q ss_pred             hhcc---CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH--HHHH-HHHHhcCCe--E
Q 028507           77 SYIR---DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI--EEGE-AKSRELNVM--F  148 (208)
Q Consensus        77 ~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~--~~~~-~~~~~~~~~--~  148 (208)
                      .|+.   +..++++++|+-.+-  ......+-.+....  ++|+++++||+|.....+...  .... .+.......  +
T Consensus        99 ~YL~~R~~L~~vvlliD~r~~~--~~~D~em~~~l~~~--~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~~~~~~~  174 (200)
T COG0218          99 EYLEKRANLKGVVLLIDARHPP--KDLDREMIEFLLEL--GIPVIVVLTKADKLKKSERNKQLNKVAEELKKPPPDDQWV  174 (200)
T ss_pred             HHHhhchhheEEEEEEECCCCC--cHHHHHHHHHHHHc--CCCeEEEEEccccCChhHHHHHHHHHHHHhcCCCCccceE
Confidence            5554   356888999997543  22222222333333  499999999999876544321  1111 111122222  8


Q ss_pred             EEeecCCCCChHHHHHHHHHHcCC
Q 028507          149 IETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +.+|+..+.|++++...|.+.+.+
T Consensus       175 ~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         175 VLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             EEEecccccCHHHHHHHHHHHhhc
Confidence            889999999999999999887654

>PRK12735 elongation factor Tu; Reviewed

Probab=99.77  E-value=1.7e-17  Score=133.17  Aligned_cols=160  Identities=17%  Similarity=0.160  Sum_probs=105.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcC-------cC---------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYD-------KF---------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~-------~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      ..++++|+++|++++|||||+++|++.       .+         ..+.....+++.  ....+......+.|+||||+.
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~--~~~~~~~~~~~i~~iDtPGh~   86 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINT--SHVEYETANRHYAHVDCPGHA   86 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEE--eeeEEcCCCcEEEEEECCCHH
Confidence            356899999999999999999999852       10         011122333333  333333334578999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCcccCC---CHHHHHHHHHhcC
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIV-LVGNKTDLVEKRQV---SIEEGEAKSRELN  145 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~D~~~~~~~---~~~~~~~~~~~~~  145 (208)
                      +|.......+..+|++++|+|+.+... ....+.+..+. .  .++|.+ +++||+|+.+..+.   ...++..++..++
T Consensus        87 ~f~~~~~~~~~~aD~~llVvda~~g~~-~qt~e~l~~~~-~--~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~  162 (396)
T PRK12735         87 DYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLAR-Q--VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYD  162 (396)
T ss_pred             HHHHHHHhhhccCCEEEEEEECCCCCc-hhHHHHHHHHH-H--cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcC
Confidence            887777777889999999999986321 12222233222 2  347755 57899999743221   1124444555443


Q ss_pred             -----CeEEEeecCCCC----------ChHHHHHHHHHHcC
Q 028507          146 -----VMFIETSAKAGF----------NIKPLFRKIAAALP  171 (208)
Q Consensus       146 -----~~~~~~sa~~~~----------~i~~~~~~l~~~~~  171 (208)
                           ++++++|+.++.          ++..+++.|...++
T Consensus       163 ~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~~  203 (396)
T PRK12735        163 FPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYIP  203 (396)
T ss_pred             CCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcCC
Confidence                 689999999984          57788888887765

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.77  E-value=2.1e-17  Score=132.75  Aligned_cols=146  Identities=16%  Similarity=0.114  Sum_probs=96.0

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      ..++++|+++|+.++|||||+++|++...                ..+..+..+++.  ....+......+.||||||++
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~--~~~~~~~~~~~~~liDtpGh~   86 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINT--AHVEYETENRHYAHVDCPGHA   86 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceee--EEEEEcCCCEEEEEEECCchH
Confidence            45789999999999999999999974200                111223334443  334444444679999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCcccCCC---HHHHHHHHHhcC
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIV-LVGNKTDLVEKRQVS---IEEGEAKSRELN  145 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~D~~~~~~~~---~~~~~~~~~~~~  145 (208)
                      +|..........+|++++|+|+++.-... ..+.+..+..   .++|.+ +++||+|+.+..+..   ..+...++..++
T Consensus        87 ~f~~~~~~~~~~~D~~ilVvda~~g~~~q-t~e~l~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~  162 (394)
T TIGR00485        87 DYVKNMITGAAQMDGAILVVSATDGPMPQ-TREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYD  162 (394)
T ss_pred             HHHHHHHHHHhhCCEEEEEEECCCCCcHH-HHHHHHHHHH---cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcC
Confidence            98776666678899999999998631111 1222222322   246754 679999987533211   234555666554


Q ss_pred             -----CeEEEeecCCCC
Q 028507          146 -----VMFIETSAKAGF  157 (208)
Q Consensus       146 -----~~~~~~sa~~~~  157 (208)
                           ++++++|+.++.
T Consensus       163 ~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       163 FPGDDTPIIRGSALKAL  179 (394)
T ss_pred             CCccCccEEECcccccc
Confidence                 689999999875

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=3e-17  Score=124.01  Aligned_cols=161  Identities=19%  Similarity=0.172  Sum_probs=118.5

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-----hhhch----h
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-----FRSLI----P   76 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-----~~~~~----~   76 (208)
                      +.....|+|.|.||||||||++.+++.+......|+++.......+....  .+++++||||.-+     .+..-    .
T Consensus       165 dp~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~--~R~QvIDTPGlLDRPl~ErN~IE~qAi~  242 (346)
T COG1084         165 DPDLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGY--LRIQVIDTPGLLDRPLEERNEIERQAIL  242 (346)
T ss_pred             CCCCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCC--ceEEEecCCcccCCChHHhcHHHHHHHH
Confidence            34567899999999999999999999988777777777666666666555  5799999999322     11111    1


Q ss_pred             hhccCCcEEEEEEeCCC--hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeec
Q 028507           77 SYIRDSSVAVVVYDVAS--RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSA  153 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~--~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa  153 (208)
                      ..-.-.++++|+||.+.  ..+.+.+..++.++.....  .|+++|+||+|+.+...+  +++.......+. ....+++
T Consensus       243 AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~~--~~~~~~~~~~~~~~~~~~~~  318 (346)
T COG1084         243 ALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEKL--EEIEASVLEEGGEEPLKISA  318 (346)
T ss_pred             HHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhHH--HHHHHHHHhhccccccceee
Confidence            12235678999999984  3578888889999988875  899999999998765544  333333444444 4677888


Q ss_pred             CCCCChHHHHHHHHHHcCC
Q 028507          154 KAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~~~~  172 (208)
                      ..+.+++.+-..+.....+
T Consensus       319 ~~~~~~d~~~~~v~~~a~~  337 (346)
T COG1084         319 TKGCGLDKLREEVRKTALE  337 (346)
T ss_pred             eehhhHHHHHHHHHHHhhc
Confidence            8899988888777777543

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

Probab=99.76  E-value=2.8e-17  Score=122.81  Aligned_cols=165  Identities=18%  Similarity=0.197  Sum_probs=107.0

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh------------hh
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER------------FR   72 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------------~~   72 (208)
                      ++.+-+.|+|+|.||+|||||.|.+++.+.........+.... ..-.+..+...+.|+||||.-.            +.
T Consensus        68 e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~-ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~l  146 (379)
T KOG1423|consen   68 EAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHR-ILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVL  146 (379)
T ss_pred             hcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeee-eeEEEecCceEEEEecCCcccccchhhhHHHHHHhh
Confidence            3567899999999999999999999999885544433332222 2222334457899999999321            11


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC-------------CC--HHHH
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ-------------VS--IEEG  137 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~-------------~~--~~~~  137 (208)
                      ......+..+|.+++|+|++++-.... -..+..+..+.  .+|-++++||+|....+.             +.  ..+.
T Consensus       147 q~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys--~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v  223 (379)
T KOG1423|consen  147 QNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYS--KIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEV  223 (379)
T ss_pred             hCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHh--cCCceeeccchhcchhhhHHhhhHHhccccccchhhhhH
Confidence            122345779999999999996322111 12233333343  489999999999764321             11  1111


Q ss_pred             HHHHHhc----------CC----eEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          138 EAKSREL----------NV----MFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       138 ~~~~~~~----------~~----~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ++.....          |+    .+|.+||++|+|++++.++|...++.-
T Consensus       224 ~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~g  273 (379)
T KOG1423|consen  224 QEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPG  273 (379)
T ss_pred             HHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCCC
Confidence            1111111          12    589999999999999999999988643

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.75  E-value=2.7e-17  Score=121.69  Aligned_cols=113  Identities=20%  Similarity=0.250  Sum_probs=77.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC--CC--------------CCCCccceeeEEEEEEEC--------CEEEEEEEEEcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF--DN--------------TYQATIGIDFLSKTMYLE--------DRTVRLQLWDTA   66 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~--~~--------------~~~~~~~~~~~~~~~~~~--------~~~~~~~i~D~~   66 (208)
                      +|+++|+.++|||||+.+|+...-  ..              +.....++......+.+.        +..+.+++||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            799999999999999999984321  10              111122222222223332        336789999999


Q ss_pred             CchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           67 GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        67 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      |+.+|......+++.+|++++|+|+++....... ..+...   ...++|+++++||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~-~~l~~~---~~~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTE-TVLRQA---LKERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHH-HHHHHH---HHcCCCEEEEEECCCcc
Confidence            9999999999999999999999999865433332 222222   22358999999999975

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

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.75  E-value=5.1e-17  Score=120.65  Aligned_cols=154  Identities=16%  Similarity=0.177  Sum_probs=94.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCC----------------Ccc-------ceeeEEEE-------------EEEC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQ----------------ATI-------GIDFLSKT-------------MYLE   54 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~----------------~~~-------~~~~~~~~-------------~~~~   54 (208)
                      ||+++|+.++|||||+++|..+.+.....                .+.       +.+.....             -.+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            68999999999999999999765532111                010       00100000             0011


Q ss_pred             CEEEEEEEEEcCCchhhhhchhhhcc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           55 DRTVRLQLWDTAGQERFRSLIPSYIR--DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        55 ~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .....++++|+||+.+|.......+.  .+|++++|+|++.... .....++..+. .  .++|+++|+||+|+.++...
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~-~--~~ip~ivvvNK~D~~~~~~~  156 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLAL-A--LNIPVFVVVTKIDLAPANIL  156 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHH-H--cCCCEEEEEECccccCHHHH
Confidence            12357999999999998765554453  7899999999975422 12223333332 2  34889999999998654322


Q ss_pred             C--HHHHHHHHHh--------------------------cCCeEEEeecCCCCChHHHHHHHHH
Q 028507          133 S--IEEGEAKSRE--------------------------LNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus       133 ~--~~~~~~~~~~--------------------------~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      .  ..+...+...                          ...+++.+|+.+|.|++++.+.|..
T Consensus       157 ~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         157 QETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            1  1122222211                          1238999999999999998877643

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

>CHL00071 tufA elongation factor Tu

Probab=99.75  E-value=6.4e-17  Score=130.40  Aligned_cols=147  Identities=16%  Similarity=0.127  Sum_probs=96.6

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      ..+.++|+++|++++|||||+++|++...                ..+..+..+++....  .+......+.++||||+.
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~--~~~~~~~~~~~iDtPGh~   86 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHV--EYETENRHYAHVDCPGHA   86 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEE--EEccCCeEEEEEECCChH
Confidence            35679999999999999999999986411                111223333333333  333334578999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCC---CHHHHHHHHHhcC
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQV---SIEEGEAKSRELN  145 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~---~~~~~~~~~~~~~  145 (208)
                      +|.......+..+|++++|+|+...-. ....+.+..+. .  .++| +++++||+|+.+..+.   ...++..+....+
T Consensus        87 ~~~~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~-~--~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~  162 (409)
T CHL00071         87 DYVKNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAK-Q--VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYD  162 (409)
T ss_pred             HHHHHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHH-H--cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            887777777889999999999985321 12222222222 2  2478 6788999999753321   1234444554443


Q ss_pred             -----CeEEEeecCCCCC
Q 028507          146 -----VMFIETSAKAGFN  158 (208)
Q Consensus       146 -----~~~~~~sa~~~~~  158 (208)
                           ++++++|+.+|.+
T Consensus       163 ~~~~~~~ii~~Sa~~g~n  180 (409)
T CHL00071        163 FPGDDIPIVSGSALLALE  180 (409)
T ss_pred             CCCCcceEEEcchhhccc
Confidence                 5899999998874

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.74  E-value=2.7e-17  Score=124.80  Aligned_cols=162  Identities=15%  Similarity=0.084  Sum_probs=118.7

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchhhhccCCcE
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIPSYIRDSSV   84 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~   84 (208)
                      |.+||.|++|||||++.+...+......+.++....--.+... ....|.+-|.||.-+       +......++.++.+
T Consensus       162 VGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~-~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~v  240 (369)
T COG0536         162 VGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVD-GGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRV  240 (369)
T ss_pred             cccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEec-CCCcEEEecCcccccccccCCCccHHHHHHHHhhhe
Confidence            5789999999999999999888776666776666666555552 234699999999543       22234556789999


Q ss_pred             EEEEEeCCChh---hHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeE-EEeecCCCCC
Q 028507           85 AVVVYDVASRQ---SFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMF-IETSAKAGFN  158 (208)
Q Consensus        85 ~i~v~d~~~~~---s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~sa~~~~~  158 (208)
                      +++|+|++..+   ..++......++..+..  .+.|.+||+||+|+....+........+....+... +++|+.++++
T Consensus       241 L~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~g  320 (369)
T COG0536         241 LLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTREG  320 (369)
T ss_pred             eEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcccC
Confidence            99999998543   36666666666666543  568999999999976555444455555555555532 2299999999


Q ss_pred             hHHHHHHHHHHcCCCc
Q 028507          159 IKPLFRKIAAALPGME  174 (208)
Q Consensus       159 i~~~~~~l~~~~~~~~  174 (208)
                      ++++...+.+.+....
T Consensus       321 ~~~L~~~~~~~l~~~~  336 (369)
T COG0536         321 LDELLRALAELLEETK  336 (369)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999988887665

>COG2262 HflX GTPases [General function prediction only]

Probab=99.74  E-value=1.3e-16  Score=123.97  Aligned_cols=158  Identities=23%  Similarity=0.280  Sum_probs=116.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh---------hhhchhhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER---------FRSLIPSYI   79 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~   79 (208)
                      -..|.++|-.|+|||||+|+|++........-+.+.+.....+.+.++ ..+.+.||.|.-+         |.++... .
T Consensus       192 ~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~g-~~vlLtDTVGFI~~LP~~LV~AFksTLEE-~  269 (411)
T COG2262         192 IPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDG-RKVLLTDTVGFIRDLPHPLVEAFKSTLEE-V  269 (411)
T ss_pred             CCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCCC-ceEEEecCccCcccCChHHHHHHHHHHHH-h
Confidence            468999999999999999999977766555666667777777777652 4699999999332         3333332 5


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      ..+|++++|+|+++|+....+..-...+....-..+|+++|.||+|+...... .....   .... ..+.+||+++.|+
T Consensus       270 ~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~~-~~~~~---~~~~-~~v~iSA~~~~gl  344 (411)
T COG2262         270 KEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEEI-LAELE---RGSP-NPVFISAKTGEGL  344 (411)
T ss_pred             hcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchhh-hhhhh---hcCC-CeEEEEeccCcCH
Confidence            78999999999999976666666555555544456999999999998654431 11111   1112 5899999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028507          160 KPLFRKIAAALPGM  173 (208)
Q Consensus       160 ~~~~~~l~~~~~~~  173 (208)
                      +.+++.|...+...
T Consensus       345 ~~L~~~i~~~l~~~  358 (411)
T COG2262         345 DLLRERIIELLSGL  358 (411)
T ss_pred             HHHHHHHHHHhhhc
Confidence            99999999988643

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.73  E-value=9.9e-17  Score=130.13  Aligned_cols=149  Identities=17%  Similarity=0.240  Sum_probs=100.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCc--C-----------------------------CCCCCCccceeeEEEEEEEC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDK--F-----------------------------DNTYQATIGIDFLSKTMYLE   54 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~   54 (208)
                      .-++++|+++|+.++|||||+.+|+...  .                             ..+.....+++.....  +.
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~--~~   81 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWK--FE   81 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEE--ec
Confidence            3567999999999999999999887311  0                             1111223333333333  33


Q ss_pred             CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHH-------HHHHHHHHHHHhcCCCCc-EEEEEeCCCC
Q 028507           55 DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFL-------NTSKWIDEVRTERGSDVI-IVLVGNKTDL  126 (208)
Q Consensus        55 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-------~~~~~~~~i~~~~~~~~p-iivv~nK~D~  126 (208)
                      ...+.++++|+|||++|.......+..+|++|+|+|+++ ..++       ...+.+. +...  .++| +++++||+|+
T Consensus        82 ~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~-~~~~--~gi~~iIV~vNKmD~  157 (447)
T PLN00043         82 TTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTT-GGFEAGISKDGQTREHAL-LAFT--LGVKQMICCCNKMDA  157 (447)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEccc-CceecccCCCchHHHHHH-HHHH--cCCCcEEEEEEcccC
Confidence            445789999999999999988888999999999999986 2232       2222222 2222  3464 6888999997


Q ss_pred             Cccc--C----CCHHHHHHHHHhcC-----CeEEEeecCCCCChH
Q 028507          127 VEKR--Q----VSIEEGEAKSRELN-----VMFIETSAKAGFNIK  160 (208)
Q Consensus       127 ~~~~--~----~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~  160 (208)
                      .+..  +    ...+++..++...+     ++++++|+.+|+|+.
T Consensus       158 ~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~  202 (447)
T PLN00043        158 TTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMI  202 (447)
T ss_pred             CchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEecccccccc
Confidence            5211  1    11345566666665     579999999999985

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.73  E-value=8.1e-17  Score=129.62  Aligned_cols=147  Identities=23%  Similarity=0.297  Sum_probs=94.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc--CC-------------------------------CCCCCccceeeEEEEEEECCE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK--FD-------------------------------NTYQATIGIDFLSKTMYLEDR   56 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~--~~-------------------------------~~~~~~~~~~~~~~~~~~~~~   56 (208)
                      ++|+++|+.++|||||+.+|+...  ..                               .+.....+++.....+..++ 
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            589999999999999999997321  10                               11112233444444444444 


Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH--
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI--  134 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~--  134 (208)
                       .++.||||||+++|.......+..+|++++|+|+...-  .........+....+ ..++++++||+|+.+......  
T Consensus        80 -~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~--~~qt~~~~~~~~~~~-~~~iivviNK~D~~~~~~~~~~~  155 (406)
T TIGR02034        80 -RKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGV--LEQTRRHSYIASLLG-IRHVVLAVNKMDLVDYDEEVFEN  155 (406)
T ss_pred             -eEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCC--ccccHHHHHHHHHcC-CCcEEEEEEecccccchHHHHHH
Confidence             57999999999999776667789999999999998532  221111122222322 245888999999865332111  


Q ss_pred             --HHHHHHHHhcC---CeEEEeecCCCCChHH
Q 028507          135 --EEGEAKSRELN---VMFIETSAKAGFNIKP  161 (208)
Q Consensus       135 --~~~~~~~~~~~---~~~~~~sa~~~~~i~~  161 (208)
                        ++...+....+   ++++++||++|+|+.+
T Consensus       156 i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       156 IKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence              22222333334   4799999999999875

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).

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.72  E-value=7.8e-17  Score=119.22  Aligned_cols=159  Identities=19%  Similarity=0.234  Sum_probs=99.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCC-CccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-----chhhhccCCcE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQ-ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-----LIPSYIRDSSV   84 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~   84 (208)
                      ||+++|+.|+||||+.+.+.++..+.+.. -..+.+.....+...+ .+.+.+||+||+..+..     .....++++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~-~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~   79 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLS-FLPLNIWDCPGQDDFMENYFNSQREEIFSNVGV   79 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTT-SCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCC-CcEEEEEEcCCccccccccccccHHHHHhccCE
Confidence            79999999999999999988776543322 1122233333443333 36899999999875433     34566899999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHh--cCCCCcEEEEEeCCCCCcccC------CCHHHHHHHHHhcC---CeEEEeec
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTE--RGSDVIIVLVGNKTDLVEKRQ------VSIEEGEAKSRELN---VMFIETSA  153 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~--~~~~~piivv~nK~D~~~~~~------~~~~~~~~~~~~~~---~~~~~~sa  153 (208)
                      +|+|+|+.+.+-.+.+.++...+...  ..++..+.++++|+|+..+..      ...+++...+...+   +.++.||.
T Consensus        80 LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI  159 (232)
T PF04670_consen   80 LIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSI  159 (232)
T ss_dssp             EEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-T
T ss_pred             EEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccC
Confidence            99999998444444455544444332  347899999999999865321      11233344444455   78999999


Q ss_pred             CCCCChHHHHHHHHHHcC
Q 028507          154 KAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~~~  171 (208)
                      .+ +.+-+.+..+.+.+-
T Consensus       160 ~D-~Sly~A~S~Ivq~Li  176 (232)
T PF04670_consen  160 WD-ESLYEAWSKIVQKLI  176 (232)
T ss_dssp             TS-THHHHHHHHHHHTTS
T ss_pred             cC-cHHHHHHHHHHHHHc
Confidence            98 588888888887664

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.72  E-value=1.4e-16  Score=116.48  Aligned_cols=157  Identities=14%  Similarity=0.175  Sum_probs=94.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccce---eeEEEEEEECCEEEEEEEEEcCCchhhhhch-----hhhccC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGI---DFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-----PSYIRD   81 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----~~~~~~   81 (208)
                      +||+++|.+|+|||||+|+|.+...........+.   +.....+... ....+.+||+||........     ...+..
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHP-KFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecC-CCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            79999999999999999999986554322222221   1111111111 12368999999975322211     222567


Q ss_pred             CcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcccC-----------CCHHHHHHHH----HhcC
Q 028507           82 SSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ-----------VSIEEGEAKS----RELN  145 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~~~-----------~~~~~~~~~~----~~~~  145 (208)
                      +|++++|.+.    ++... ..++..+...   +.|+++|+||+|+.....           ...++.+..+    ...+
T Consensus        81 ~d~~l~v~~~----~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~  153 (197)
T cd04104          81 YDFFIIISST----RFSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAG  153 (197)
T ss_pred             cCEEEEEeCC----CCCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcC
Confidence            8998888542    23332 3444444443   488999999999853211           0011111111    1212


Q ss_pred             ---CeEEEeecC--CCCChHHHHHHHHHHcCCCc
Q 028507          146 ---VMFIETSAK--AGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       146 ---~~~~~~sa~--~~~~i~~~~~~l~~~~~~~~  174 (208)
                         -++|-+|+.  .+.++..+.+.|...+++..
T Consensus       154 ~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~  187 (197)
T cd04104         154 VSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHK  187 (197)
T ss_pred             CCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHH
Confidence               278999998  57899999999999887643

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.72  E-value=1.2e-16  Score=130.66  Aligned_cols=152  Identities=21%  Similarity=0.267  Sum_probs=96.7

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcC--CC-------------------------------CCCCccceeeEEEEEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKF--DN-------------------------------TYQATIGIDFLSKTMY   52 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~--~~-------------------------------~~~~~~~~~~~~~~~~   52 (208)
                      ....++|+++|+.++|||||+.+|+...-  ..                               +.....+++.....+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            35679999999999999999999974321  10                               0111233444434444


Q ss_pred             ECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           53 LEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        53 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .++  ..+.||||||+..|.......+..+|++++|+|++..  +.........+....+ ..++++++||+|+.+....
T Consensus       104 ~~~--~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G--~~~qt~~~~~l~~~lg-~~~iIvvvNKiD~~~~~~~  178 (474)
T PRK05124        104 TEK--RKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKG--VLDQTRRHSFIATLLG-IKHLVVAVNKMDLVDYSEE  178 (474)
T ss_pred             cCC--cEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCC--ccccchHHHHHHHHhC-CCceEEEEEeeccccchhH
Confidence            433  5799999999998876555567999999999999753  2121111122222222 2468889999998743321


Q ss_pred             CHHHH----HHHHHhc----CCeEEEeecCCCCChHHH
Q 028507          133 SIEEG----EAKSREL----NVMFIETSAKAGFNIKPL  162 (208)
Q Consensus       133 ~~~~~----~~~~~~~----~~~~~~~sa~~~~~i~~~  162 (208)
                      ...+.    ..+....    ..+++++||++|.|+.++
T Consensus       179 ~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        179 VFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            12222    2222332    368999999999998764

>PLN03126 Elongation factor Tu; Provisional

Probab=99.72  E-value=4.5e-16  Score=126.92  Aligned_cols=146  Identities=16%  Similarity=0.120  Sum_probs=95.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCc------C----------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDK------F----------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~------~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .+.++|+++|+.++|||||+++|++..      .          ..+.....+++.....+..++  ..+.++|+||+.+
T Consensus        79 k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~--~~i~liDtPGh~~  156 (478)
T PLN03126         79 KPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETEN--RHYAHVDCPGHAD  156 (478)
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCC--cEEEEEECCCHHH
Confidence            467999999999999999999998521      1          112223333333333343333  5789999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCC---CHHHHHHHHHhc--
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQV---SIEEGEAKSREL--  144 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~---~~~~~~~~~~~~--  144 (208)
                      |.......+..+|++++|+|+.+.... ...+++..+. .  .++| +++++||+|+.+..+.   ...++..+....  
T Consensus       157 f~~~~~~g~~~aD~ailVVda~~G~~~-qt~e~~~~~~-~--~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~  232 (478)
T PLN03126        157 YVKNMITGAAQMDGAILVVSGADGPMP-QTKEHILLAK-Q--VGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEF  232 (478)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHH-H--cCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCC
Confidence            988777778899999999999854221 2223333222 2  2477 7788999998753221   112344444443  


Q ss_pred             ---CCeEEEeecCCCCC
Q 028507          145 ---NVMFIETSAKAGFN  158 (208)
Q Consensus       145 ---~~~~~~~sa~~~~~  158 (208)
                         .++++++|+.++.+
T Consensus       233 ~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        233 PGDDIPIISGSALLALE  249 (478)
T ss_pred             CcCcceEEEEEcccccc
Confidence               45899999988753

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

Probab=99.72  E-value=4.3e-16  Score=124.77  Aligned_cols=159  Identities=19%  Similarity=0.253  Sum_probs=115.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC-EEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      +..=|+++|+...|||||+..+..........-..+-......+..+. ..-.++|+|||||+.|..+..+-..-+|.+|
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaI   83 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAI   83 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEE
Confidence            446689999999999999999987776554444443333344444431 2246999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC---------CeEEEeecCCCC
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN---------VMFIETSAKAGF  157 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~sa~~~~  157 (208)
                      +|++++|.  +...  ..+.+......++|+++++||+|..+   .+.........++|         ..++++||++|+
T Consensus        84 LVVa~dDG--v~pQ--TiEAI~hak~a~vP~iVAiNKiDk~~---~np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~  156 (509)
T COG0532          84 LVVAADDG--VMPQ--TIEAINHAKAAGVPIVVAINKIDKPE---ANPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGE  156 (509)
T ss_pred             EEEEccCC--cchh--HHHHHHHHHHCCCCEEEEEecccCCC---CCHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCC
Confidence            99999952  2221  12223333335699999999999873   33445554455544         368999999999


Q ss_pred             ChHHHHHHHHHHcCCC
Q 028507          158 NIKPLFRKIAAALPGM  173 (208)
Q Consensus       158 ~i~~~~~~l~~~~~~~  173 (208)
                      |+.+|+..+.-...-+
T Consensus       157 Gi~eLL~~ill~aev~  172 (509)
T COG0532         157 GIDELLELILLLAEVL  172 (509)
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9999999887766544

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.72  E-value=3.5e-16  Score=121.39  Aligned_cols=162  Identities=19%  Similarity=0.248  Sum_probs=101.3

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEE---------------------CC-EEEEEEEEEcCCc-
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL---------------------ED-RTVRLQLWDTAGQ-   68 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~-~~~~~~i~D~~G~-   68 (208)
                      |+++|.|++|||||+++|++........|.++++.......+                     ++ ..+.+.+||+||. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            579999999999999999988764444444443333222211                     22 3367999999997 


Q ss_pred             ---hhhhhchhh---hccCCcEEEEEEeCCCh-------------hhHHHHHHHHHHHHH--------------------
Q 028507           69 ---ERFRSLIPS---YIRDSSVAVVVYDVASR-------------QSFLNTSKWIDEVRT--------------------  109 (208)
Q Consensus        69 ---~~~~~~~~~---~~~~~d~~i~v~d~~~~-------------~s~~~~~~~~~~i~~--------------------  109 (208)
                         .+...+...   .++.+|++++|+|+++.             +...++.....++..                    
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~~~d~~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~~~~~~~~~~~~~~~  160 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKADAE  160 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence               334443333   48999999999999730             111111110000000                    


Q ss_pred             ---------------------------h----------------------cCCCCcEEEEEeCCCCCcccCCCHHHHHHH
Q 028507          110 ---------------------------E----------------------RGSDVIIVLVGNKTDLVEKRQVSIEEGEAK  140 (208)
Q Consensus       110 ---------------------------~----------------------~~~~~piivv~nK~D~~~~~~~~~~~~~~~  140 (208)
                                                 .                      ....+|+++++||.|+......  .+ ...
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~llt~KPvI~VlNK~Dl~~~~~~--~~-~l~  237 (318)
T cd01899         161 KTDIVEALSEQLSGFGVNEKDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAANKADIPDAENN--IS-KLR  237 (318)
T ss_pred             CccHHHHHHHHHhhccccHHHHHHHHHhCCCCCcccCCCHHHHHHHHHHHHhcCCcEEEEEEHHHccChHHH--HH-HHH
Confidence                                       0                      0124799999999997533221  11 111


Q ss_pred             HHhcCCeEEEeecCCCCChHHHHH-HHHHHcCCCccc
Q 028507          141 SRELNVMFIETSAKAGFNIKPLFR-KIAAALPGMETL  176 (208)
Q Consensus       141 ~~~~~~~~~~~sa~~~~~i~~~~~-~l~~~~~~~~~~  176 (208)
                      .......++.+||+.+.++.++.+ .+.+.+++-+..
T Consensus       238 ~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe~~~f  274 (318)
T cd01899         238 LKYPDEIVVPTSAEAELALRRAAKQGLIKYDPGDSDF  274 (318)
T ss_pred             hhCCCCeEEEEeCcccccHHHHHHhhHHHhCCCCCCc
Confidence            222245899999999999999998 699999765443

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>PRK00049 elongation factor Tu; Reviewed

Probab=99.71  E-value=5.4e-16  Score=124.48  Aligned_cols=159  Identities=17%  Similarity=0.151  Sum_probs=103.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .++++|+++|+.++|||||+++|++...                ..+..+..+++..  ...+......+.++||||+.+
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~~~~~~~i~~iDtPG~~~   87 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTA--HVEYETEKRHYAHVDCPGHAD   87 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeee--EEEEcCCCeEEEEEECCCHHH
Confidence            5689999999999999999999986311                1111233333433  333433345789999999998


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCcccCC---CHHHHHHHHHhc--
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIV-LVGNKTDLVEKRQV---SIEEGEAKSREL--  144 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~D~~~~~~~---~~~~~~~~~~~~--  144 (208)
                      |.......+..+|++++|+|+.+.-. ....+.+..+. .  .++|.+ +++||+|+.+....   ...++..+....  
T Consensus        88 f~~~~~~~~~~aD~~llVVDa~~g~~-~qt~~~~~~~~-~--~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~  163 (396)
T PRK00049         88 YVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLAR-Q--VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDF  163 (396)
T ss_pred             HHHHHHhhhccCCEEEEEEECCCCCc-hHHHHHHHHHH-H--cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCC
Confidence            87777777899999999999985321 12223333332 2  247865 57899998642221   112333344333  


Q ss_pred             ---CCeEEEeecCCCC----------ChHHHHHHHHHHcC
Q 028507          145 ---NVMFIETSAKAGF----------NIKPLFRKIAAALP  171 (208)
Q Consensus       145 ---~~~~~~~sa~~~~----------~i~~~~~~l~~~~~  171 (208)
                         .++++++|+.++.          ++..+++.|...++
T Consensus       164 ~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~~  203 (396)
T PRK00049        164 PGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSYIP  203 (396)
T ss_pred             CccCCcEEEeecccccCCCCcccccccHHHHHHHHHhcCC
Confidence               3589999999875          45677777777654

>cd01850 CDC_Septin CDC/Septin

Probab=99.71  E-value=2.5e-16  Score=120.47  Aligned_cols=143  Identities=13%  Similarity=0.176  Sum_probs=94.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCC----------CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-----
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNT----------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-----   73 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----   73 (208)
                      .++|+++|.+|+|||||+|+|++..+...          ..++..+......+..++..+++.||||||......     
T Consensus         4 ~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~   83 (276)
T cd01850           4 QFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCW   83 (276)
T ss_pred             EEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhH
Confidence            58999999999999999999998876433          234444555556666777778999999999432211     


Q ss_pred             ---------------------chhhhcc--CCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           74 ---------------------LIPSYIR--DSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        74 ---------------------~~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                                           .....+.  .+|+++++++.+.. .+... ...+..+.    ..+|+++|+||+|+...
T Consensus        84 ~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~-~l~~~D~~~lk~l~----~~v~vi~VinK~D~l~~  158 (276)
T cd01850          84 KPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLDIEFMKRLS----KRVNIIPVIAKADTLTP  158 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHHHHHHHHHh----ccCCEEEEEECCCcCCH
Confidence                                 0101222  46777888877642 11111 22233332    25899999999998653


Q ss_pred             c--CCCHHHHHHHHHhcCCeEEEeecCCC
Q 028507          130 R--QVSIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus       130 ~--~~~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      .  ......+...+..+++.++.....+.
T Consensus       159 ~e~~~~k~~i~~~l~~~~i~~~~~~~~~~  187 (276)
T cd01850         159 EELKEFKQRIMEDIEEHNIKIYKFPEDEE  187 (276)
T ss_pred             HHHHHHHHHHHHHHHHcCCceECCCCCcc
Confidence            3  23456667778888999888765433

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.71  E-value=5.4e-16  Score=125.76  Aligned_cols=159  Identities=18%  Similarity=0.142  Sum_probs=101.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC------c----------CCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD------K----------FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~------~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .+.++|+++|+.++|||||+++|.+.      .          ...+..+..+++.....  +......+.|+||||+.+
T Consensus        59 k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~--~~~~~~~i~~iDtPGh~~  136 (447)
T PLN03127         59 KPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVE--YETAKRHYAHVDCPGHAD  136 (447)
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEE--EcCCCeEEEEEECCCccc
Confidence            46799999999999999999999621      1          01222244444443333  433446789999999998


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCCCH---HHHHHHHHhc--
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQVSI---EEGEAKSREL--  144 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~~~---~~~~~~~~~~--  144 (208)
                      |.......+..+|++++|+|+++... ....+.+..+. .  .++| +++++||+|+.+..+...   .+...+....  
T Consensus       137 f~~~~~~g~~~aD~allVVda~~g~~-~qt~e~l~~~~-~--~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~  212 (447)
T PLN03127        137 YVKNMITGAAQMDGGILVVSAPDGPM-PQTKEHILLAR-Q--VGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKF  212 (447)
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCCCc-hhHHHHHHHHH-H--cCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCC
Confidence            87766666778999999999975321 11122222222 2  3478 567899999975322111   1222333322  


Q ss_pred             ---CCeEEEeecC---CCCC-------hHHHHHHHHHHcC
Q 028507          145 ---NVMFIETSAK---AGFN-------IKPLFRKIAAALP  171 (208)
Q Consensus       145 ---~~~~~~~sa~---~~~~-------i~~~~~~l~~~~~  171 (208)
                         .++++++|+.   ++.+       +..+++.|...++
T Consensus       213 ~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        213 PGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             CCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence               2578888875   4544       6788888888765

>cd04169 RF3 RF3 subfamily

Probab=99.71  E-value=6.5e-16  Score=117.62  Aligned_cols=114  Identities=21%  Similarity=0.235  Sum_probs=77.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc--CCCC--------------------CCCccceeeEEEEEEECCEEEEEEEEEcCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK--FDNT--------------------YQATIGIDFLSKTMYLEDRTVRLQLWDTAG   67 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~--~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   67 (208)
                      .+|+|+|++|+|||||+++|+...  ....                    .....++......+.+  +.+++++|||||
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~--~~~~i~liDTPG   80 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEY--RDCVINLLDTPG   80 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEee--CCEEEEEEECCC
Confidence            579999999999999999998421  1100                    0011222233334444  447899999999


Q ss_pred             chhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           68 QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        68 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      +.+|.......++.+|++|+|+|+++... .....++....   ..++|+++++||+|+...
T Consensus        81 ~~df~~~~~~~l~~aD~~IlVvda~~g~~-~~~~~i~~~~~---~~~~P~iivvNK~D~~~a  138 (267)
T cd04169          81 HEDFSEDTYRTLTAVDSAVMVIDAAKGVE-PQTRKLFEVCR---LRGIPIITFINKLDREGR  138 (267)
T ss_pred             chHHHHHHHHHHHHCCEEEEEEECCCCcc-HHHHHHHHHHH---hcCCCEEEEEECCccCCC
Confidence            99988877778899999999999986422 12223333222   235899999999997543

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.71  E-value=3.6e-16  Score=126.64  Aligned_cols=165  Identities=18%  Similarity=0.148  Sum_probs=106.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC---CCCCCCccceeeEEEEE---------------EECC-------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDFLSKTM---------------YLED-------------   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~~~---------------~~~~-------------   55 (208)
                      ..+++|.++|+..+|||||+.+|++...   ..+.....+++.-....               ....             
T Consensus        32 ~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (460)
T PTZ00327         32 QATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGH  111 (460)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccc
Confidence            4679999999999999999999996432   22222222222111110               0000             


Q ss_pred             ---EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           56 ---RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        56 ---~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                         -...+.|+|+|||+.|.......+..+|++++|+|+++........+.+. +....+ -.++++++||+|+.+....
T Consensus       112 ~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~-i~~~lg-i~~iIVvlNKiDlv~~~~~  189 (460)
T PTZ00327        112 KMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLA-AVEIMK-LKHIIILQNKIDLVKEAQA  189 (460)
T ss_pred             cccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHH-HHHHcC-CCcEEEEEecccccCHHHH
Confidence               02368999999999998877777889999999999986311111122222 222332 2468889999998753221


Q ss_pred             --CHHHHHHHHHh---cCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          133 --SIEEGEAKSRE---LNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       133 --~~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                        ..+++..+...   .+.+++++||++|.|++.+++.|.+.++..
T Consensus       190 ~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp~~  235 (460)
T PTZ00327        190 QDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIPIP  235 (460)
T ss_pred             HHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCCCC
Confidence              12233333222   356999999999999999999999877543

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.71  E-value=4.3e-16  Score=126.48  Aligned_cols=150  Identities=19%  Similarity=0.200  Sum_probs=97.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cC-----------------------------CCCCCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KF-----------------------------DNTYQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~   55 (208)
                      .++++|+++|+.++|||||+.+|+..  ..                             ..+.....+++.....+.  .
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~--~   82 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFE--T   82 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEc--c
Confidence            46799999999999999999998741  11                             111222333444333333  3


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh---hH---HHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCc
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ---SF---LNTSKWIDEVRTERGSDVI-IVLVGNKTDLVE  128 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~  128 (208)
                      ....++|+|+|||.+|.......+..+|++|+|+|++...   .+   ....+.+. +...  .++| +++++||+|...
T Consensus        83 ~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~-~~~~--~gi~~iiv~vNKmD~~~  159 (446)
T PTZ00141         83 PKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHAL-LAFT--LGVKQMIVCINKMDDKT  159 (446)
T ss_pred             CCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHH-HHHH--cCCCeEEEEEEcccccc
Confidence            4478999999999999888888889999999999998531   01   12222222 2222  2366 678999999432


Q ss_pred             --ccCCC----HHHHHHHHHhcC-----CeEEEeecCCCCChHH
Q 028507          129 --KRQVS----IEEGEAKSRELN-----VMFIETSAKAGFNIKP  161 (208)
Q Consensus       129 --~~~~~----~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  161 (208)
                        ..+..    ..++..+....+     ++++++|+.+|+|+.+
T Consensus       160 ~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        160 VNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             chhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence              11111    233333333333     5799999999999863

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

Probab=99.70  E-value=3.7e-16  Score=124.80  Aligned_cols=162  Identities=19%  Similarity=0.194  Sum_probs=116.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC---------------CCCCCCccceeeEEEE-EEECCEEEEEEEEEcCCchhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF---------------DNTYQATIGIDFLSKT-MYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~---------------~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      +--++.|+-+...|||||..+|+...-               .-+.+..+++.-.... +..++..+.++++|||||.+|
T Consensus        59 ~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvDF  138 (650)
T KOG0462|consen   59 NIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVDF  138 (650)
T ss_pred             hccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCcccc
Confidence            346789999999999999999973211               1123334444333332 333467789999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-HHHHHHHHHhcCCeEEE
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-IEEGEAKSRELNVMFIE  150 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-~~~~~~~~~~~~~~~~~  150 (208)
                      .......+..|+|+|+|+|++..-....+..++..+..    +.-+|.|+||+|+..++... ..+..........+.+.
T Consensus       139 s~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~----~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i~  214 (650)
T KOG0462|consen  139 SGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEA----GLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVIY  214 (650)
T ss_pred             cceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHc----CCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceEE
Confidence            99999999999999999999965444555555655543    47789999999997654211 12222223333458999


Q ss_pred             eecCCCCChHHHHHHHHHHcCCC
Q 028507          151 TSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      +||++|.++.++++.|++.++.-
T Consensus       215 vSAK~G~~v~~lL~AII~rVPpP  237 (650)
T KOG0462|consen  215 VSAKTGLNVEELLEAIIRRVPPP  237 (650)
T ss_pred             EEeccCccHHHHHHHHHhhCCCC
Confidence            99999999999999999999754

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.70  E-value=1.4e-16  Score=108.62  Aligned_cols=156  Identities=19%  Similarity=0.258  Sum_probs=115.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.-|++++|..|+|||||++.|...+..... ||.  ......+.+.+  .+++.+|.+||..-+..|..++..+|++++
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl~qhv-PTl--HPTSE~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~   93 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRLGQHV-PTL--HPTSEELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVY   93 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHccccccccC-CCc--CCChHHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEe
Confidence            4568999999999999999999977664322 111  12233344544  679999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc--------------C---CeEE
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL--------------N---VMFI  149 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~--------------~---~~~~  149 (208)
                      .+|+-|.+.+.+....++.+.... -..+|+++.+||+|...+-  +.++.+......              +   +.++
T Consensus        94 lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evf  171 (193)
T KOG0077|consen   94 LVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVF  171 (193)
T ss_pred             eeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEEE
Confidence            999999999998887777765443 2569999999999986543  333332221111              1   2578


Q ss_pred             EeecCCCCChHHHHHHHHHHc
Q 028507          150 ETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      .+|...+.+..+.|.|+...+
T Consensus       172 mcsi~~~~gy~e~fkwl~qyi  192 (193)
T KOG0077|consen  172 MCSIVRKMGYGEGFKWLSQYI  192 (193)
T ss_pred             EEEEEccCccceeeeehhhhc
Confidence            888888888888888877654

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

Probab=99.70  E-value=5.7e-16  Score=122.02  Aligned_cols=173  Identities=17%  Similarity=0.176  Sum_probs=124.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc--C-------------CCCCCCccceeeEEEEEEE---CCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK--F-------------DNTYQATIGIDFLSKTMYL---EDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~--~-------------~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~   69 (208)
                      +--+..++.+-..|||||..+|+...  .             +-+....+++......+.+   ++..+.++++|||||-
T Consensus         8 ~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHV   87 (603)
T COG0481           8 NIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHV   87 (603)
T ss_pred             hccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCcc
Confidence            34577888999999999999987321  1             1233344444444444433   4578999999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC---
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV---  146 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~---  146 (208)
                      +|.-...+.+..|.|.++|+|++..-....+...|..+..    +.-++.|+||+|+..+..  ..-.++...-.|+   
T Consensus        88 DFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~----~LeIiPViNKIDLP~Adp--ervk~eIe~~iGid~~  161 (603)
T COG0481          88 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN----NLEIIPVLNKIDLPAADP--ERVKQEIEDIIGIDAS  161 (603)
T ss_pred             ceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc----CcEEEEeeecccCCCCCH--HHHHHHHHHHhCCCcc
Confidence            9998888889999999999999965444556777776654    477899999999976543  1222333344555   


Q ss_pred             eEEEeecCCCCChHHHHHHHHHHcCCCcccccccccccccc
Q 028507          147 MFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDV  187 (208)
Q Consensus       147 ~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~  187 (208)
                      ..+.+||++|.|+.++++.|++.++.-. ..+..+++.+..
T Consensus       162 dav~~SAKtG~gI~~iLe~Iv~~iP~P~-g~~~~pLkALif  201 (603)
T COG0481         162 DAVLVSAKTGIGIEDVLEAIVEKIPPPK-GDPDAPLKALIF  201 (603)
T ss_pred             hheeEecccCCCHHHHHHHHHhhCCCCC-CCCCCcceEEEE
Confidence            6799999999999999999999997544 444555554443

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

Probab=99.70  E-value=7e-16  Score=117.55  Aligned_cols=112  Identities=21%  Similarity=0.284  Sum_probs=79.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc--CcC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507           11 KLVFLGDQSVGKTSIITRFMY--DKF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      +|+++|++|+|||||+++|+.  +..                +.+.....+++.....+.+.+  +++.+|||||+.++.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKD--HRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECC--EEEEEEECCCcHHHH
Confidence            589999999999999999973  111                112233444555555566655  679999999999888


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      ..+...++.+|++|+|+|+.+..... ....+..+..   .++|+++++||+|+.+
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~-t~~~~~~~~~---~~~p~ivviNK~D~~~  130 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQ-TETVWRQADR---YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            88888999999999999998532211 1222232322   3589999999999864

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

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.69  E-value=6.4e-16  Score=130.96  Aligned_cols=153  Identities=22%  Similarity=0.238  Sum_probs=95.9

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcC--CC-------------------------------CCCCccceeeEEEE
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKF--DN-------------------------------TYQATIGIDFLSKT   50 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~--~~-------------------------------~~~~~~~~~~~~~~   50 (208)
                      ++....++|+++|++++|||||+++|+...-  ..                               +.....+++.....
T Consensus        19 ~~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~   98 (632)
T PRK05506         19 HERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRY   98 (632)
T ss_pred             ccCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeE
Confidence            3445678999999999999999999985321  10                               00112223333333


Q ss_pred             EEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           51 MYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        51 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      +..++  ..+.|+||||+++|.......+..+|++++|+|++....-.. .+.+..+ ...+ ..++++++||+|+.+..
T Consensus        99 ~~~~~--~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t-~e~~~~~-~~~~-~~~iivvvNK~D~~~~~  173 (632)
T PRK05506         99 FATPK--RKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT-RRHSFIA-SLLG-IRHVVLAVNKMDLVDYD  173 (632)
T ss_pred             EccCC--ceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccC-HHHHHHH-HHhC-CCeEEEEEEecccccch
Confidence            33333  568899999999887666667889999999999975321111 1111112 2222 25688899999986422


Q ss_pred             CCCH----HHHHHHHHhcCC---eEEEeecCCCCChHH
Q 028507          131 QVSI----EEGEAKSRELNV---MFIETSAKAGFNIKP  161 (208)
Q Consensus       131 ~~~~----~~~~~~~~~~~~---~~~~~sa~~~~~i~~  161 (208)
                      ....    .+...+....++   +++++||++|.|+.+
T Consensus       174 ~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        174 QEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             hHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            2111    222233344443   699999999999874

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.68  E-value=1.7e-15  Score=125.04  Aligned_cols=116  Identities=21%  Similarity=0.234  Sum_probs=78.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc--CcCC------C--------------CCCCccceeeEEEEEEECCEEEEEEEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY--DKFD------N--------------TYQATIGIDFLSKTMYLEDRTVRLQLWD   64 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~--~~~~------~--------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D   64 (208)
                      .+..+|+|+|++++|||||.++|+.  +...      .              ......++......+.+++  +.+++||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~--~~inliD   85 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRD--CLINLLD   85 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECC--EEEEEEE
Confidence            3457999999999999999999973  2110      0              0001122223333444444  7799999


Q ss_pred             cCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           65 TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        65 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      |||+.+|.......+..+|++|+|+|+++.-. .....++....   ..++|+++++||+|+..
T Consensus        86 TPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~---~~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         86 TPGHEDFSEDTYRTLTAVDSALMVIDAAKGVE-PQTRKLMEVCR---LRDTPIFTFINKLDRDG  145 (526)
T ss_pred             CCCchhhHHHHHHHHHHCCEEEEEEecCCCCC-HHHHHHHHHHH---hcCCCEEEEEECCcccc
Confidence            99999998877778899999999999986321 11223332222   24699999999999753

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

Probab=99.68  E-value=4e-16  Score=119.36  Aligned_cols=153  Identities=15%  Similarity=0.157  Sum_probs=96.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCC------------------CCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTY------------------QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      +|+++|++|+|||||+++|+........                  ....++......+.+++  +.+.+|||||+.++.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~--~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKG--HKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECC--EEEEEEECcCHHHHH
Confidence            5899999999999999999743211000                  01122223333444444  679999999999888


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeE--EE
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMF--IE  150 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~--~~  150 (208)
                      ..+..++..+|++++|+|+++....... ..+..+..   .++|+++++||+|.....  .......+...++.++  +.
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~-~~~~~~~~---~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~~  152 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTE-KLWEFADE---AGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPLQ  152 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEEE
Confidence            8888889999999999999865433322 22222322   358999999999986532  1222233333445433  44


Q ss_pred             eecCCCCChHHHHHHHHHHcC
Q 028507          151 TSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       151 ~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      +...++.++..+.+.+.....
T Consensus       153 ip~~~~~~~~~~vd~~~~~~~  173 (268)
T cd04170         153 LPIGEGDDFKGVVDLLTEKAY  173 (268)
T ss_pred             ecccCCCceeEEEEcccCEEE
Confidence            456677776666555554443

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

>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=99.67  E-value=2.6e-15  Score=100.53  Aligned_cols=106  Identities=20%  Similarity=0.262  Sum_probs=70.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh---------hhchhhhcc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF---------RSLIPSYIR   80 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~~   80 (208)
                      +|+|+|.+|+|||||+|+|++... .....+..+.......+.+++.  .+.++||||...-         .......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~--~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNK--KFILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTE--EEEEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeecee--eEEEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            689999999999999999998643 2233333333444455566764  4689999995421         111233358


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNK  123 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK  123 (208)
                      .+|++++|+|++++.. +.....+..+.    .+.|+++|+||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            9999999999877322 22334444442    45999999998

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 ....

>PRK13351 elongation factor G; Reviewed

Probab=99.67  E-value=1.6e-15  Score=129.74  Aligned_cols=116  Identities=21%  Similarity=0.296  Sum_probs=82.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC--------CC-----C-----CCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF--------DN-----T-----YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~--------~~-----~-----~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      ....+|+|+|+.|+|||||+++|+...-        ..     +     .....++......+.+.+  +.+++|||||+
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~--~~i~liDtPG~   83 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDN--HRINLIDTPGH   83 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECC--EEEEEEECCCc
Confidence            3568999999999999999999984211        00     0     011222233333444444  78999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      .+|...+..+++.+|++|+|+|+++.........| ..+..   .++|+++++||+|+..
T Consensus        84 ~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~  139 (687)
T PRK13351         84 IDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVG  139 (687)
T ss_pred             HHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCC
Confidence            99988888999999999999999876554443333 22322   3589999999999864

>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=99.67  E-value=1.4e-16  Score=113.03  Aligned_cols=118  Identities=18%  Similarity=0.348  Sum_probs=72.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEE-CCEEEEEEEEEcCCchhhhhchhh---hccCCcE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQERFRSLIPS---YIRDSSV   84 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~---~~~~~d~   84 (208)
                      .-.|+++|+.|+|||+|+..|..+.......+. .  ... .... ......+.++|+|||++.+.....   +...+.+
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e--~n~-~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~   78 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-E--NNI-AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKG   78 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---S-S--EEE-ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-c--CCc-eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCE
Confidence            457899999999999999999998654433332 1  111 1111 122246999999999988764444   3788999


Q ss_pred             EEEEEeCCC-hhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCccc
Q 028507           85 AVVVYDVAS-RQSFLNTSKWIDEVRTER---GSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        85 ~i~v~d~~~-~~s~~~~~~~~~~i~~~~---~~~~piivv~nK~D~~~~~  130 (208)
                      +|||+|.+. +..+..+.+++-.+....   ...+|++|++||.|+....
T Consensus        79 IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   79 IIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             EEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            999999974 445556555544443322   3679999999999986543

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.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.67  E-value=1.3e-15  Score=118.48  Aligned_cols=153  Identities=22%  Similarity=0.287  Sum_probs=104.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCc--C-----------------------------CCCCCCccceeeEEEEEEEC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDK--F-----------------------------DNTYQATIGIDFLSKTMYLE   54 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~   54 (208)
                      ..++++++++|+..+|||||+-+|+...  +                             .++...  +.+.......+.
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERer--GvTi~~~~~~fe   81 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERER--GVTIDVAHSKFE   81 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhc--ceEEEEEEEEee
Confidence            3568999999999999999999987431  1                             112222  333344444444


Q ss_pred             CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh---h--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           55 DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ---S--FLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        55 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s--~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      ...+.++|+|+|||.+|....-..+.++|+.|+|+|+.+.+   +  ...+.+....+.+..+ --.+||++||+|..+-
T Consensus        82 t~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v~w  160 (428)
T COG5256          82 TDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLVSW  160 (428)
T ss_pred             cCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEccccccc
Confidence            45578999999999999888888889999999999998753   1  2233444444444444 2447888899999874


Q ss_pred             cCCCHHHHHH----HHHhcC-----CeEEEeecCCCCChHH
Q 028507          130 RQVSIEEGEA----KSRELN-----VMFIETSAKAGFNIKP  161 (208)
Q Consensus       130 ~~~~~~~~~~----~~~~~~-----~~~~~~sa~~~~~i~~  161 (208)
                      ++-.++++..    +.+..|     ++++++|+..|.|+.+
T Consensus       161 de~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         161 DEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             CHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccc
Confidence            4433333322    333333     4699999999999764

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.66  E-value=3.6e-15  Score=108.99  Aligned_cols=159  Identities=11%  Similarity=0.126  Sum_probs=98.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCC--CccceeeEEEEEEECCEEEEEEEEEcCCchhhhh--------c---hh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQ--ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS--------L---IP   76 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~---~~   76 (208)
                      ++|+++|.+|+|||||+|++++........  +..+.........+.+  ..+.++||||..+...        +   ..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~--~~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG--RRVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC--eEEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            479999999999999999999876543321  2222233333334444  5699999999654321        1   11


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCCcccCCC------HHHHHHHHHhcCCeE
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS--DVIIVLVGNKTDLVEKRQVS------IEEGEAKSRELNVMF  148 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piivv~nK~D~~~~~~~~------~~~~~~~~~~~~~~~  148 (208)
                      ....+.|++++|+++.+. +. .-...++.+....++  -.++++++|+.|......+.      ....+......+-.+
T Consensus        79 ~~~~g~~~illVi~~~~~-t~-~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~  156 (196)
T cd01852          79 LSAPGPHAFLLVVPLGRF-TE-EEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRY  156 (196)
T ss_pred             hcCCCCEEEEEEEECCCc-CH-HHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeE
Confidence            224678999999999862 21 123334445444432  25688889999876543211      123333444445555


Q ss_pred             EEeec-----CCCCChHHHHHHHHHHcCC
Q 028507          149 IETSA-----KAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       149 ~~~sa-----~~~~~i~~~~~~l~~~~~~  172 (208)
                      +.++.     ..+.++.++++.|.+++.+
T Consensus       157 ~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         157 VAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             EEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            55554     4567888999999888865

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).

>TIGR00503 prfC peptide chain release factor 3

Probab=99.66  E-value=5.2e-15  Score=122.16  Aligned_cols=116  Identities=21%  Similarity=0.251  Sum_probs=78.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc--CcCCC------C------------CCCccceeeEEEEEEECCEEEEEEEEEcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY--DKFDN------T------------YQATIGIDFLSKTMYLEDRTVRLQLWDTA   66 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~--~~~~~------~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   66 (208)
                      .+..+|+|+|++++|||||+++|+.  +....      .            .....+++.......++.+.+.+++||||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            4567999999999999999999863  21100      0            00111233333333333344789999999


Q ss_pred             CchhhhhchhhhccCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           67 GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        67 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      |+.+|.......+..+|++|+|+|+++.  +.. ...++... ..  .++|+++++||+|+.
T Consensus        89 G~~df~~~~~~~l~~aD~aIlVvDa~~g--v~~~t~~l~~~~-~~--~~~PiivviNKiD~~  145 (527)
T TIGR00503        89 GHEDFSEDTYRTLTAVDNCLMVIDAAKG--VETRTRKLMEVT-RL--RDTPIFTFMNKLDRD  145 (527)
T ss_pred             ChhhHHHHHHHHHHhCCEEEEEEECCCC--CCHHHHHHHHHH-Hh--cCCCEEEEEECcccc
Confidence            9998887777788999999999999853  222 23333322 22  458999999999984

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.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.66  E-value=1.2e-15  Score=120.02  Aligned_cols=182  Identities=19%  Similarity=0.305  Sum_probs=124.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc--CC------------CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK--FD------------NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL   74 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~--~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   74 (208)
                      --+|+|+.+...|||||+..|+.+.  |.            .......+++...+...+..+.++++|+|||||.+|..-
T Consensus         5 iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGE   84 (603)
T COG1217           5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGE   84 (603)
T ss_pred             cceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccch
Confidence            3689999999999999999998432  21            122233455655555444444489999999999999999


Q ss_pred             hhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-HHHHHHHH-------HhcCC
Q 028507           75 IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-IEEGEAKS-------RELNV  146 (208)
Q Consensus        75 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-~~~~~~~~-------~~~~~  146 (208)
                      .+..+...|++++++|+.+.  .....++...-.-.  .+.+.|+|+||+|...++... .++.-.+.       .++++
T Consensus        85 VERvl~MVDgvlLlVDA~EG--pMPQTrFVlkKAl~--~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdF  160 (603)
T COG1217          85 VERVLSMVDGVLLLVDASEG--PMPQTRFVLKKALA--LGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDF  160 (603)
T ss_pred             hhhhhhhcceEEEEEEcccC--CCCchhhhHHHHHH--cCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCC
Confidence            99999999999999999852  22233333322222  235567778999987654311 12222222       23467


Q ss_pred             eEEEeecCCCC----------ChHHHHHHHHHHcCCCc-cccccccccccccccccccC
Q 028507          147 MFIETSAKAGF----------NIKPLFRKIAAALPGME-TLSSTKQEEMVDVNLRSTTG  194 (208)
Q Consensus       147 ~~~~~sa~~~~----------~i~~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  194 (208)
                      ++++.|+..|.          ++..+|+.|.++++.-. +...+-|.+...+++.+..+
T Consensus       161 PivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~~~~d~PlQ~qvt~Ldyn~y~G  219 (603)
T COG1217         161 PIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPKGDLDEPLQMQVTQLDYNSYVG  219 (603)
T ss_pred             cEEEeeccCceeccCccccccchhHHHHHHHHhCCCCCCCCCCCeEEEEEeeccccccc
Confidence            99999998764          68899999999998554 23445566666777776554

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

Probab=99.65  E-value=9.6e-16  Score=121.23  Aligned_cols=163  Identities=18%  Similarity=0.205  Sum_probs=113.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-hhhc--------hhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-FRSL--------IPS   77 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~--------~~~   77 (208)
                      ..++|+|+|+||+|||||+|.|..... ..+..+.++.+.....+.++|  +++.+.||+|..+ -...        -..
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~rA~k  344 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIERARK  344 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHHHHH
Confidence            458999999999999999999997665 456778888888888888888  7899999999766 1111        123


Q ss_pred             hccCCcEEEEEEeCC--ChhhHHHHHHHHHHHHHhcC------CCCcEEEEEeCCCCCcc-cCCCHHHHHHHHHhc---C
Q 028507           78 YIRDSSVAVVVYDVA--SRQSFLNTSKWIDEVRTERG------SDVIIVLVGNKTDLVEK-RQVSIEEGEAKSREL---N  145 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~--~~~s~~~~~~~~~~i~~~~~------~~~piivv~nK~D~~~~-~~~~~~~~~~~~~~~---~  145 (208)
                      .+..+|++++|+|+.  +-++-..+.+.+.....-..      ...+++++.||.|+... .+....- ..+....   .
T Consensus       345 ~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~-~~~~~~~~~~~  423 (531)
T KOG1191|consen  345 RIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIP-VVYPSAEGRSV  423 (531)
T ss_pred             HHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCc-eeccccccCcc
Confidence            467899999999994  33333334455554433222      34789999999999765 2222111 1111111   1


Q ss_pred             C-eEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          146 V-MFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       146 ~-~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      . .+.++|++++++++.+.+.+.+.+...
T Consensus       424 ~~i~~~vs~~tkeg~~~L~~all~~~~~~  452 (531)
T KOG1191|consen  424 FPIVVEVSCTTKEGCERLSTALLNIVERL  452 (531)
T ss_pred             cceEEEeeechhhhHHHHHHHHHHHHHHh
Confidence            2 456699999999999999888877533

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.65  E-value=6.7e-15  Score=117.78  Aligned_cols=178  Identities=17%  Similarity=0.171  Sum_probs=123.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCC--CCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTY--QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      .+..-|-|+|+...|||||+..|.........  ..|..+..+...+. +|  -.++|.|||||..|..|..+...-+|+
T Consensus       151 ~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G--~~iTFLDTPGHaAF~aMRaRGA~vtDI  227 (683)
T KOG1145|consen  151 PRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SG--KSITFLDTPGHAAFSAMRARGANVTDI  227 (683)
T ss_pred             CCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CC--CEEEEecCCcHHHHHHHHhccCccccE
Confidence            35677899999999999999999876653322  22333333444443 44  579999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC---------CeEEEeecCC
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN---------VMFIETSAKA  155 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~sa~~  155 (208)
                      +|+|+.++|.  +..  ..++.|.....-++|+++.+||+|..+   .+.+.+.+.....|         ..++++||++
T Consensus       228 vVLVVAadDG--Vmp--QT~EaIkhAk~A~VpiVvAinKiDkp~---a~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~  300 (683)
T KOG1145|consen  228 VVLVVAADDG--VMP--QTLEAIKHAKSANVPIVVAINKIDKPG---ANPEKVKRELLSQGIVVEDLGGDVQVIPISALT  300 (683)
T ss_pred             EEEEEEccCC--ccH--hHHHHHHHHHhcCCCEEEEEeccCCCC---CCHHHHHHHHHHcCccHHHcCCceeEEEeeccc
Confidence            9999999863  211  122334334445799999999999653   34566666555554         3689999999


Q ss_pred             CCChHHHHHHHHHHcCCCccc-cccccccccccccccccC
Q 028507          156 GFNIKPLFRKIAAALPGMETL-SSTKQEEMVDVNLRSTTG  194 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  194 (208)
                      |.|++.+-+.+.-...-+.-+ .+..+.+-..++.+-+.+
T Consensus       301 g~nl~~L~eaill~Ae~mdLkA~p~g~~eg~VIES~vdkg  340 (683)
T KOG1145|consen  301 GENLDLLEEAILLLAEVMDLKADPKGPAEGWVIESSVDKG  340 (683)
T ss_pred             CCChHHHHHHHHHHHHHhhcccCCCCCceEEEEEeeecCC
Confidence            999999988887665433333 244444444555554443

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.65  E-value=7.9e-15  Score=110.76  Aligned_cols=154  Identities=21%  Similarity=0.226  Sum_probs=112.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-------hhchhhhccC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-------RSLIPSYIRD   81 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~   81 (208)
                      .-.+++||+|++|||||++.|++-+......++++.+...-.+.+++  ..++++|+||.-.-       ....-..+++
T Consensus        63 da~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vlsv~R~  140 (365)
T COG1163          63 DATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLSVARN  140 (365)
T ss_pred             CeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC--ceEEEEcCcccccCcccCCCCcceeeeeecc
Confidence            46899999999999999999998887777777777888888888888  66999999985432       1234556899


Q ss_pred             CcEEEEEEeCCChhh-HHHHHHHHHHHHHh--------------------------------------------------
Q 028507           82 SSVAVVVYDVASRQS-FLNTSKWIDEVRTE--------------------------------------------------  110 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~--------------------------------------------------  110 (208)
                      ||.+++|+|+..+.. .+.+.+.+....-.                                                  
T Consensus       141 ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~I  220 (365)
T COG1163         141 ADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLI  220 (365)
T ss_pred             CCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEE
Confidence            999999999985443 33343333322100                                                  


Q ss_pred             ---------------cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          111 ---------------RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       111 ---------------~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                                     ...-+|.++|.||+|+..     .++........  .++.+||..+.|++++.+.|-+.+.
T Consensus       221 r~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         221 REDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             ecCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhC
Confidence                           011377888899999755     22333333332  7899999999999999999988774

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.65  E-value=1.3e-15  Score=112.76  Aligned_cols=162  Identities=20%  Similarity=0.297  Sum_probs=107.2

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCC--CccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQ--ATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIP   76 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~   76 (208)
                      ....++|+++|..|+|||||+|+|+++...+...  .++.++... ...+++  -.+.+||+||..+       +.....
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~-~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~  112 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRL-RLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYR  112 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhH-Hhhccc--cceEEecCCCcccchhhhHHHHHHHH
Confidence            4567999999999999999999999765433221  111111111 112233  4599999999654       677788


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc--------CCCHH-------HHHHHH
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR--------QVSIE-------EGEAKS  141 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~--------~~~~~-------~~~~~~  141 (208)
                      .++...|.++++.++.|++--.... ++..+.... .+.++++++|..|+..+.        ..+..       ++....
T Consensus       113 d~l~~~DLvL~l~~~~draL~~d~~-f~~dVi~~~-~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~  190 (296)
T COG3596         113 DYLPKLDLVLWLIKADDRALGTDED-FLRDVIILG-LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALG  190 (296)
T ss_pred             HHhhhccEEEEeccCCCccccCCHH-HHHHHHHhc-cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHH
Confidence            8899999999999999875333333 334443332 237899999999987641        11111       111111


Q ss_pred             Hhc--CCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          142 REL--NVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       142 ~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +..  =.+++.++...+.|++++...++..++.
T Consensus       191 ~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp~  223 (296)
T COG3596         191 RLFQEVKPVVAVSGRLPWGLKELVRALITALPV  223 (296)
T ss_pred             HHHhhcCCeEEeccccCccHHHHHHHHHHhCcc
Confidence            111  1378889999999999999999999873

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.64  E-value=6.2e-15  Score=104.94  Aligned_cols=155  Identities=25%  Similarity=0.327  Sum_probs=101.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc---CCcEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR---DSSVAV   86 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~d~~i   86 (208)
                      -.|+++|+.++|||+|+-+|..+.+...   .++++.......+...  ..+++|.|||.+.+.-...++.   .+-++|
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~T---vtSiepn~a~~r~gs~--~~~LVD~PGH~rlR~kl~e~~~~~~~akaiV  113 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGT---VTSIEPNEATYRLGSE--NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIV  113 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCe---eeeeccceeeEeecCc--ceEEEeCCCcHHHHHHHHHHccccccceeEE
Confidence            4689999999999999999998854332   2223333444444443  3899999999998776666666   799999


Q ss_pred             EEEeCCC-hhhHHHHH-HHHHHHHHh--cCCCCcEEEEEeCCCCCcccCCCH------HHH-------------------
Q 028507           87 VVYDVAS-RQSFLNTS-KWIDEVRTE--RGSDVIIVLVGNKTDLVEKRQVSI------EEG-------------------  137 (208)
Q Consensus        87 ~v~d~~~-~~s~~~~~-~~~~~i~~~--~~~~~piivv~nK~D~~~~~~~~~------~~~-------------------  137 (208)
                      ||+|... +....++. .+|..+...  ....+|+++++||.|+..++....      .|+                   
T Consensus       114 FVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~  193 (238)
T KOG0090|consen  114 FVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIA  193 (238)
T ss_pred             EEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhcccccccc
Confidence            9999862 23344444 444444444  246788999999999864322100      000                   


Q ss_pred             ---------HHH--HH--hcCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          138 ---------EAK--SR--ELNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       138 ---------~~~--~~--~~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                               ..|  .+  .....+.+.|++++ ++.++-+||.+.+
T Consensus       194 ~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~l  238 (238)
T KOG0090|consen  194 KDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREAL  238 (238)
T ss_pred             ccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHhC
Confidence                     000  00  01235788888888 8999999987753

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.63  E-value=2.7e-14  Score=114.06  Aligned_cols=165  Identities=20%  Similarity=0.270  Sum_probs=102.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEE---------------------C-CEEEEEEEEEcCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL---------------------E-DRTVRLQLWDTAG   67 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------------~-~~~~~~~i~D~~G   67 (208)
                      ++|+|+|.|++|||||+|+|++........+..+++.......+                     + .....+.+||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            68999999999999999999988765444454444433322221                     1 1235799999999


Q ss_pred             ch----hhhhchhh---hccCCcEEEEEEeCCC-------------hhhHHH---HH----HH--------HHHHHH---
Q 028507           68 QE----RFRSLIPS---YIRDSSVAVVVYDVAS-------------RQSFLN---TS----KW--------IDEVRT---  109 (208)
Q Consensus        68 ~~----~~~~~~~~---~~~~~d~~i~v~d~~~-------------~~s~~~---~~----~~--------~~~i~~---  109 (208)
                      ..    ....+-..   .++++|++++|+|+.+             .+...+   +.    .|        +..+..   
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~~~~~~~~~~~~~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~~~~~  161 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDASGSTDEEGNPVEPGSHDPVEDIKFLEEELDMWIYGILEKNWEKFSRKAQ  161 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccCCcccCCCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            53    22233333   3889999999999961             011111   11    10        000000   


Q ss_pred             ------------------------------h---------------------cCCCCcEEEEEeCCCCCcccCCCHHHHH
Q 028507          110 ------------------------------E---------------------RGSDVIIVLVGNKTDLVEKRQVSIEEGE  138 (208)
Q Consensus       110 ------------------------------~---------------------~~~~~piivv~nK~D~~~~~~~~~~~~~  138 (208)
                                                    .                     ....+|+++|+||.|....... ..+..
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~e~~v~~~L~~~g~~~~~~~~~~~~~~~I~~~~l~t~KPvI~VlNK~D~~~~~~~-l~~i~  240 (396)
T PRK09602        162 AEKFDIEEALAEQLSGLGINEEHVKEALRELGLPEDPSKWTDEDLLELARELRKISKPMVIAANKADLPPAEEN-IERLK  240 (396)
T ss_pred             cCCcchHHHHHHHHhhhccCHHHHHHHHHHcCCcCcccCCCHHHHHHHHHhhhhcCCCEEEEEEchhcccchHH-HHHHH
Confidence                                          0                     0124899999999997532211 12222


Q ss_pred             HHHHhcCCeEEEeecCCCCChHH-HHHHHHHHcCCCccccc
Q 028507          139 AKSRELNVMFIETSAKAGFNIKP-LFRKIAAALPGMETLSS  178 (208)
Q Consensus       139 ~~~~~~~~~~~~~sa~~~~~i~~-~~~~l~~~~~~~~~~~~  178 (208)
                      .   ..+..++.+||..+.++.+ +.+.+.+.+++-+.-.+
T Consensus       241 ~---~~~~~vvpISA~~e~~l~~~l~~~i~~~lp~~p~~~~  278 (396)
T PRK09602        241 E---EKYYIVVPTSAEAELALRRAAKAGLIDYIPGDSDFEI  278 (396)
T ss_pred             h---cCCCcEEEEcchhhhhHHHHHHHhHHhhCCCCCccCc
Confidence            2   2345799999999999999 78899888876654443

>PRK12739 elongation factor G; Reviewed

Probab=99.63  E-value=3.4e-14  Score=121.55  Aligned_cols=116  Identities=21%  Similarity=0.235  Sum_probs=83.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      .+-.+|+|+|++++|||||+++|+..  ..                ..+..+.++++.....+.+++  ..++++||||+
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~   83 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPGH   83 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCCH
Confidence            34578999999999999999999742  11                011234455556566666665  67999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      .++...+...+..+|++|+|+|+.+.-.... ...+..+.   ..++|+++++||+|+..
T Consensus        84 ~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt-~~i~~~~~---~~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         84 VDFTIEVERSLRVLDGAVAVFDAVSGVEPQS-ETVWRQAD---KYGVPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHHhCeEEEEEeCCCCCCHHH-HHHHHHHH---HcCCCEEEEEECCCCCC
Confidence            9888888888999999999999986422221 12222222   23589999999999864

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.62  E-value=2.1e-14  Score=122.81  Aligned_cols=122  Identities=17%  Similarity=0.167  Sum_probs=85.1

Q ss_pred             CCCCCCCceeEEEEcCCCCCHHHHHHHhhcCc--C------C----------CCCCCccceeeEEEEEEECCEEEEEEEE
Q 028507            2 APVSALAKYKLVFLGDQSVGKTSIITRFMYDK--F------D----------NTYQATIGIDFLSKTMYLEDRTVRLQLW   63 (208)
Q Consensus         2 ~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~--~------~----------~~~~~~~~~~~~~~~~~~~~~~~~~~i~   63 (208)
                      .+....+-.+|+|+|++++|||||+++|+...  .      .          .+....++++.....+.+++  +.+.+|
T Consensus         3 ~~~~~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~--~~i~li   80 (689)
T TIGR00484         3 RTTDLNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG--HRINII   80 (689)
T ss_pred             CcCccccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC--eEEEEE
Confidence            34444455799999999999999999997321  1      0          01123344455555566655  679999


Q ss_pred             EcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           64 DTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        64 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      ||||+.++.......+..+|++|+|+|+++....... ..+..+..   .++|+++++||+|+...
T Consensus        81 DTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~-~~~~~~~~---~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        81 DTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSE-TVWRQANR---YEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             ECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHH-HHHHHHHH---cCCCEEEEEECCCCCCC
Confidence            9999998887788889999999999999864333322 22222222   35899999999998753

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.

>PRK00007 elongation factor G; Reviewed

Probab=99.57  E-value=1.1e-13  Score=118.31  Aligned_cols=119  Identities=18%  Similarity=0.188  Sum_probs=83.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhc--CcCC----------------CCCCCccceeeEEEEEEECCEEEEEEEEEcCC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMY--DKFD----------------NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG   67 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~--~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   67 (208)
                      ..+-.+|+|+|++++|||||+++|+.  +...                .+..+..+++.....+.+.+  ..++++||||
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~--~~~~liDTPG   84 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD--HRINIIDTPG   84 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC--eEEEEEeCCC
Confidence            34457999999999999999999973  2110                01234455555556666665  6799999999


Q ss_pred             chhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           68 QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        68 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      +.+|.......+..+|++|+|+|+...-.... ...+..+.   ..++|+++++||+|+....
T Consensus        85 ~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt-~~~~~~~~---~~~~p~iv~vNK~D~~~~~  143 (693)
T PRK00007         85 HVDFTIEVERSLRVLDGAVAVFDAVGGVEPQS-ETVWRQAD---KYKVPRIAFVNKMDRTGAD  143 (693)
T ss_pred             cHHHHHHHHHHHHHcCEEEEEEECCCCcchhh-HHHHHHHH---HcCCCEEEEEECCCCCCCC
Confidence            99887777777899999999999875322222 12222222   2348899999999987543

>PRK09866 hypothetical protein; Provisional

Probab=99.56  E-value=3.2e-13  Score=111.24  Aligned_cols=108  Identities=17%  Similarity=0.213  Sum_probs=72.6

Q ss_pred             EEEEEEcCCchh-----hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC
Q 028507           59 RLQLWDTAGQER-----FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS  133 (208)
Q Consensus        59 ~~~i~D~~G~~~-----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~  133 (208)
                      .+.|+||||...     +.......+..+|++++|+|++...+..+ ....+.+.. .+...|+++|+||+|+.+.....
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk-~~K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILA-VGQSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHh-cCCCCCEEEEEEcccCCCcccch
Confidence            488999999653     22234456899999999999986433332 223333333 22236999999999986433323


Q ss_pred             HHHHHHHHH----hcC---CeEEEeecCCCCChHHHHHHHHH
Q 028507          134 IEEGEAKSR----ELN---VMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus       134 ~~~~~~~~~----~~~---~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      .+....+..    ..+   ..++++||+.|.|++.+++.|..
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            444444432    112   27999999999999999999877

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.54  E-value=1.3e-13  Score=105.21  Aligned_cols=151  Identities=23%  Similarity=0.312  Sum_probs=110.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC------------CCC-------------------CCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF------------DNT-------------------YQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~------------~~~-------------------~~~~~~~~~~~~~~~~~~   55 (208)
                      ...++++-+|...-||||||-+|+....            ...                   .+...+++.-.....+..
T Consensus         4 k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT   83 (431)
T COG2895           4 KSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFST   83 (431)
T ss_pred             ccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeeccc
Confidence            3458999999999999999999984321            000                   000123333333333444


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHH
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIE  135 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~  135 (208)
                      .+.+|.|.|||||+.|...+-.-...+|+.|+++|+-  ..+....+....|....+ -..+++.+||+|+.+-.+..++
T Consensus        84 ~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR--~Gvl~QTrRHs~I~sLLG-IrhvvvAVNKmDLvdy~e~~F~  160 (431)
T COG2895          84 EKRKFIIADTPGHEQYTRNMATGASTADLAILLVDAR--KGVLEQTRRHSFIASLLG-IRHVVVAVNKMDLVDYSEEVFE  160 (431)
T ss_pred             ccceEEEecCCcHHHHhhhhhcccccccEEEEEEecc--hhhHHHhHHHHHHHHHhC-CcEEEEEEeeecccccCHHHHH
Confidence            4578999999999999998888889999999999994  677777777777777665 2557888899999876554443


Q ss_pred             H----HHHHHHhcCC---eEEEeecCCCCChH
Q 028507          136 E----GEAKSRELNV---MFIETSAKAGFNIK  160 (208)
Q Consensus       136 ~----~~~~~~~~~~---~~~~~sa~~~~~i~  160 (208)
                      +    -..|+..+++   .++++||..|+|+-
T Consensus       161 ~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         161 AIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            3    3556677775   78999999999864

>PRK12740 elongation factor G; Reviewed

Probab=99.53  E-value=1.9e-13  Score=116.90  Aligned_cols=108  Identities=19%  Similarity=0.200  Sum_probs=75.4

Q ss_pred             EcCCCCCHHHHHHHhhcCcC--------C----------CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchh
Q 028507           15 LGDQSVGKTSIITRFMYDKF--------D----------NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIP   76 (208)
Q Consensus        15 vG~~~~GKstli~~l~~~~~--------~----------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   76 (208)
                      +|++++|||||+++|+...-        .          .+..+..++......+.+.+  +.+++|||||+.++...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~--~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG--HKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC--EEEEEEECCCcHHHHHHHH
Confidence            69999999999999963211        0          01112334444445555555  7799999999998888788


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      ..+..+|++++|+|+++......... +..+.   ..++|+++++||+|+..
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~-~~~~~---~~~~p~iiv~NK~D~~~  126 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETV-WRQAE---KYGVPRIIFVNKMDRAG  126 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHH-HHHHH---HcCCCEEEEEECCCCCC
Confidence            88999999999999987544433322 22222   23589999999999863

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

Probab=99.53  E-value=4.9e-13  Score=102.30  Aligned_cols=126  Identities=12%  Similarity=0.160  Sum_probs=76.1

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhch-------h
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-------P   76 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-------~   76 (208)
                      ++...++|+++|.+|+||||++|+|++..... +.....+..........++  .++.+|||||..+.....       .
T Consensus        34 ~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G--~~l~VIDTPGL~d~~~~~e~~~~~ik  111 (313)
T TIGR00991        34 EDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAG--FTLNIIDTPGLIEGGYINDQAVNIIK  111 (313)
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECC--eEEEEEECCCCCchHHHHHHHHHHHH
Confidence            34578999999999999999999999876532 2222222222223333444  679999999966432211       1


Q ss_pred             hhc--cCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCC--CCcEEEEEeCCCCCcccCCC
Q 028507           77 SYI--RDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGS--DVIIVLVGNKTDLVEKRQVS  133 (208)
Q Consensus        77 ~~~--~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~--~~piivv~nK~D~~~~~~~~  133 (208)
                      .++  ...|++++|..++.. .+.. -...+..+...++.  -.++++++|+.|...+...+
T Consensus       112 ~~l~~~g~DvVLyV~rLD~~-R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~  172 (313)
T TIGR00991       112 RFLLGKTIDVLLYVDRLDAY-RVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLE  172 (313)
T ss_pred             HHhhcCCCCEEEEEeccCcc-cCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCC
Confidence            111  268999999665422 1221 12334444444432  24589999999976544433

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.53  E-value=5.2e-13  Score=101.03  Aligned_cols=164  Identities=20%  Similarity=0.302  Sum_probs=120.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEE--CCEEEEEEEEEcCCchhhhhchhhhccCC---
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL--EDRTVRLQLWDTAGQERFRSLIPSYIRDS---   82 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~---   82 (208)
                      ..-+|+|+|..|+|||||+.+|.+..   ..-+..+.++....+..  .+...++.+|-..|..-+..+....+...   
T Consensus        51 sgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~a  127 (473)
T KOG3905|consen   51 SGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLA  127 (473)
T ss_pred             CCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCcc
Confidence            35689999999999999999998766   33344445555444433  33456788998888776666666555433   


Q ss_pred             -cEEEEEEeCCChhh-HHHHHHHHHHHHHh--------------------------------------------------
Q 028507           83 -SVAVVVYDVASRQS-FLNTSKWIDEVRTE--------------------------------------------------  110 (208)
Q Consensus        83 -d~~i~v~d~~~~~s-~~~~~~~~~~i~~~--------------------------------------------------  110 (208)
                       ..+|++.|.++|++ ++.++.|..-++.+                                                  
T Consensus       128 etlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~  207 (473)
T KOG3905|consen  128 ETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEH  207 (473)
T ss_pred             ceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCccccc
Confidence             47888999999965 45578887766553                                                  


Q ss_pred             -----------cCCCCcEEEEEeCCCCCc----ccC-------CCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507          111 -----------RGSDVIIVLVGNKTDLVE----KRQ-------VSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus       111 -----------~~~~~piivv~nK~D~~~----~~~-------~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                                 ...++|++||++|+|...    +.+       .....++.||..+|..++++|+++..||+-+..+|.+
T Consensus       208 ~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivh  287 (473)
T KOG3905|consen  208 VLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVH  287 (473)
T ss_pred             cccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHH
Confidence                       113588999999999842    222       2234567888999999999999999999999999999


Q ss_pred             HcCCCc
Q 028507          169 ALPGME  174 (208)
Q Consensus       169 ~~~~~~  174 (208)
                      .....+
T Consensus       288 r~yG~~  293 (473)
T KOG3905|consen  288 RSYGFP  293 (473)
T ss_pred             HhcCcc
Confidence            887654

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

Probab=99.51  E-value=9.4e-14  Score=90.66  Aligned_cols=137  Identities=22%  Similarity=0.253  Sum_probs=96.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc----hhhhhchhhhccCCcEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ----ERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----~~~~~~~~~~~~~~d~~i   86 (208)
                      ||++||..|+|||||.+.|.+....  +..|..+       .+++    =-.+||||.    ..+..-.......+|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~l--ykKTQAv-------e~~d----~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTL--YKKTQAV-------EFND----KGDIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhh--hccccee-------eccC----ccccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            7999999999999999999876542  2222221       1211    125799983    333333344467899999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|-+++++++.-.     ..+..-  ...|+|-|++|.|+.+..  .....++|..+.|. ++|++|+.+..|+++++..
T Consensus        70 ~v~~and~~s~f~-----p~f~~~--~~k~vIgvVTK~DLaed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~  140 (148)
T COG4917          70 YVHAANDPESRFP-----PGFLDI--GVKKVIGVVTKADLAEDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVDY  140 (148)
T ss_pred             eeecccCccccCC-----cccccc--cccceEEEEecccccchH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHHH
Confidence            9999998864221     111111  236688899999998643  35677888889898 8999999999999999998


Q ss_pred             HHHH
Q 028507          166 IAAA  169 (208)
Q Consensus       166 l~~~  169 (208)
                      |...
T Consensus       141 L~~~  144 (148)
T COG4917         141 LASL  144 (148)
T ss_pred             HHhh
Confidence            8653

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.50  E-value=1.8e-12  Score=105.15  Aligned_cols=166  Identities=22%  Similarity=0.347  Sum_probs=121.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC--CEEEEEEEEEcCCchhhhhchhhhccC---
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE--DRTVRLQLWDTAGQERFRSLIPSYIRD---   81 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~---   81 (208)
                      ..+-.|+|+|..++|||||+.+|.+..   ...++.+.+|....+.-+  ....++++|-..|...+..+....+..   
T Consensus        23 ~~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l   99 (472)
T PF05783_consen   23 PSEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENL   99 (472)
T ss_pred             CCCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccc
Confidence            456789999999999999999987543   345566777666554433  234578999998877777766655543   


Q ss_pred             -CcEEEEEEeCCChhhHH-HHHHHHHHHHHh-------------------------------c-----------------
Q 028507           82 -SSVAVVVYDVASRQSFL-NTSKWIDEVRTE-------------------------------R-----------------  111 (208)
Q Consensus        82 -~d~~i~v~d~~~~~s~~-~~~~~~~~i~~~-------------------------------~-----------------  111 (208)
                       --.+|+|.|.+.|+.+. .+..|+..++.+                               .                 
T Consensus       100 ~~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~  179 (472)
T PF05783_consen  100 PNTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDD  179 (472)
T ss_pred             cceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccc
Confidence             34888999999998755 467776665432                               0                 


Q ss_pred             --------------CCCCcEEEEEeCCCCCcc----cC-------CCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507          112 --------------GSDVIIVLVGNKTDLVEK----RQ-------VSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus       112 --------------~~~~piivv~nK~D~~~~----~~-------~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                                    ..++|++||++|.|....    ..       +.....+.+|..+|+.++++|.+...+++-++.+|
T Consensus       180 ~~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi  259 (472)
T PF05783_consen  180 ESVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYI  259 (472)
T ss_pred             ccccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHH
Confidence                          013799999999997531    11       22234677788899999999999999999999999


Q ss_pred             HHHcCCCcc
Q 028507          167 AAALPGMET  175 (208)
Q Consensus       167 ~~~~~~~~~  175 (208)
                      .+.+...+-
T Consensus       260 ~h~l~~~~f  268 (472)
T PF05783_consen  260 LHRLYGFPF  268 (472)
T ss_pred             HHHhccCCC
Confidence            998876544

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 [].

>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=99.50  E-value=2.7e-13  Score=100.16  Aligned_cols=161  Identities=12%  Similarity=0.112  Sum_probs=94.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCC--ccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-------ch----h
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQA--TIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-------LI----P   76 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~----~   76 (208)
                      ++|+|+|..|+||||++|.+++.........  ..+.........+++  ..+.|+||||..+...       .+    .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            5899999999999999999998876444321  122233333446666  5699999999432111       11    1


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCC--CcEEEEEeCCCCCcccCCC-------HHHHHHHHHhcCCe
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD--VIIVLVGNKTDLVEKRQVS-------IEEGEAKSRELNVM  147 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piivv~nK~D~~~~~~~~-------~~~~~~~~~~~~~~  147 (208)
                      ....+.|++++|+..... +- .-...+..+....++.  ..++||+|..|...+..+.       ......+....+-.
T Consensus        79 ~~~~g~ha~llVi~~~r~-t~-~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R  156 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLGRF-TE-EDREVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGR  156 (212)
T ss_dssp             HTTT-ESEEEEEEETTB--SH-HHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             hccCCCeEEEEEEecCcc-hH-HHHHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCE
Confidence            234679999999999832 21 1223344444444432  3488888988866554311       11233444555667


Q ss_pred             EEEeecC------CCCChHHHHHHHHHHcCCCc
Q 028507          148 FIETSAK------AGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       148 ~~~~sa~------~~~~i~~~~~~l~~~~~~~~  174 (208)
                      |+.++.+      ....+.++++.|-.++.+..
T Consensus       157 ~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  157 YHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             EEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            7777766      33467888888888876554

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 ....

>PTZ00258 GTP-binding protein; Provisional

Probab=99.49  E-value=1e-12  Score=104.12  Aligned_cols=85  Identities=19%  Similarity=0.180  Sum_probs=62.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEE---------------EEEEEEEcCCchh--
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT---------------VRLQLWDTAGQER--   70 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~--   70 (208)
                      ..++|+|+|.||+|||||+|+|++........|.++++.....+.+.+..               ..+.++|+||...  
T Consensus        20 ~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga   99 (390)
T PTZ00258         20 NNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGA   99 (390)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCC
Confidence            46899999999999999999998877766666777766666555554322               2489999999542  


Q ss_pred             -----hhhchhhhccCCcEEEEEEeCC
Q 028507           71 -----FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        71 -----~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                           ........++.+|++++|+|+.
T Consensus       100 ~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        100 SEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             cchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence                 1222334578999999999984

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

Probab=99.49  E-value=1.5e-12  Score=98.05  Aligned_cols=121  Identities=16%  Similarity=0.207  Sum_probs=74.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCC-CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh--h-c-------h
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNT-YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR--S-L-------I   75 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--~-~-------~   75 (208)
                      ...++|+|+|.+|+|||||+|+|++...... .....+..........++  ..+.+|||||.....  . .       .
T Consensus        29 ~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~~~I  106 (249)
T cd01853          29 DFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKILSSI  106 (249)
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHHHHHH
Confidence            4579999999999999999999998765322 121222222223333444  579999999966441  1 1       1


Q ss_pred             hhhcc--CCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCC--CcEEEEEeCCCCCccc
Q 028507           76 PSYIR--DSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSD--VIIVLVGNKTDLVEKR  130 (208)
Q Consensus        76 ~~~~~--~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~--~piivv~nK~D~~~~~  130 (208)
                      ..++.  ..|++++|..++... ... -...++.+....+..  .++++|.||+|...+.
T Consensus       107 ~~~l~~~~idvIL~V~rlD~~r~~~~-d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~  165 (249)
T cd01853         107 KRYLKKKTPDVVLYVDRLDMYRRDYL-DLPLLRAITDSFGPSIWRNAIVVLTHAASSPPD  165 (249)
T ss_pred             HHHHhccCCCEEEEEEcCCCCCCCHH-HHHHHHHHHHHhChhhHhCEEEEEeCCccCCCC
Confidence            12232  578888887665321 111 124444555444322  4689999999986543

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.48  E-value=1.5e-12  Score=113.96  Aligned_cols=145  Identities=25%  Similarity=0.269  Sum_probs=93.7

Q ss_pred             CCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEE----------------EEEEEEEcCCchhhhhchhhhccCCc
Q 028507           20 VGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT----------------VRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus        20 ~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      ++||||+..+.+-.........++...-...+..+...                -.+.||||||++.|..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            45999999999777654433333333222233332110                12899999999999888877888999


Q ss_pred             EEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC----------------HHHHH----H-
Q 028507           84 VAVVVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS----------------IEEGE----A-  139 (208)
Q Consensus        84 ~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~----------------~~~~~----~-  139 (208)
                      ++++|+|+++   +++++.+.    .+..   .++|+++++||+|+.......                ..+..    . 
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v  624 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYEL  624 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            9999999986   44444332    2222   258999999999986432110                00100    0 


Q ss_pred             --HHHhc---------------CCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          140 --KSREL---------------NVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       140 --~~~~~---------------~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                        ...+.               ..+++++||++|+|+.+++.+|.....
T Consensus       625 ~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        625 IGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             hhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhH
Confidence              01111               248999999999999999988865543

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.47  E-value=2.8e-13  Score=116.27  Aligned_cols=117  Identities=21%  Similarity=0.190  Sum_probs=77.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc---------------CCC-CCCCcccee--eEEEEEEECCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK---------------FDN-TYQATIGID--FLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~---------------~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      +..+|+++|+.++|||||+++|+...               +.. +.....++.  ........++..+.+++|||||+.
T Consensus        18 ~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~   97 (720)
T TIGR00490        18 FIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHV   97 (720)
T ss_pred             cccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCcc
Confidence            34799999999999999999997421               000 001111221  111222345556889999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      +|.......+..+|++|+|+|+.+.-....... +...   ...++|+++++||+|...
T Consensus        98 ~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~-~~~~---~~~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        98 DFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETV-LRQA---LKENVKPVLFINKVDRLI  152 (720)
T ss_pred             ccHHHHHHHHHhcCEEEEEEecCCCCCccHHHH-HHHH---HHcCCCEEEEEEChhccc
Confidence            988878888999999999999975321121111 1111   123478889999999853

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.

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.46  E-value=6.5e-13  Score=105.59  Aligned_cols=162  Identities=19%  Similarity=0.143  Sum_probs=115.8

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-----hhc----hh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-----RSL----IP   76 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~----~~   76 (208)
                      +...-.++|+|-|+||||+|++.+........+.++++...+...+.++-  ..++++||||.-+.     +..    +.
T Consensus       165 Dp~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dykY--lrwQViDTPGILD~plEdrN~IEmqsIT  242 (620)
T KOG1490|consen  165 DPNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDYKY--LRWQVIDTPGILDRPEEDRNIIEMQIIT  242 (620)
T ss_pred             CCCcCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhhhe--eeeeecCCccccCcchhhhhHHHHHHHH
Confidence            56678899999999999999999998887666666666555555555443  67999999994321     110    11


Q ss_pred             hhccCCcEEEEEEeCCC--hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHH---HHhcCCeEEEe
Q 028507           77 SYIRDSSVAVVVYDVAS--RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAK---SRELNVMFIET  151 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~--~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~---~~~~~~~~~~~  151 (208)
                      ....--.+++++.|++.  ..++.....++..|..... +.|+|+|+||+|+.....+..+....+   ...-+++++++
T Consensus       243 ALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFa-NK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~t  321 (620)
T KOG1490|consen  243 ALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFA-NKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQT  321 (620)
T ss_pred             HHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhc-CCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEe
Confidence            11223457888889884  3577788888888877774 589999999999988877765543222   23334799999


Q ss_pred             ecCCCCChHHHHHHHHHHc
Q 028507          152 SAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~  170 (208)
                      |+.+.+|+.++.....+.+
T Consensus       322 S~~~eegVm~Vrt~ACe~L  340 (620)
T KOG1490|consen  322 SCVQEEGVMDVRTTACEAL  340 (620)
T ss_pred             cccchhceeeHHHHHHHHH
Confidence            9999999988765544433

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.45  E-value=4.1e-13  Score=101.13  Aligned_cols=98  Identities=17%  Similarity=0.243  Sum_probs=79.9

Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCe
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVM  147 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  147 (208)
                      +++..+.+.++.++|++++|||+++|. ++..+.+|+..+..   .++|+++|+||+|+.+.+....+....+. ..+++
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~~-~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHHH-HCCCe
Confidence            677888888999999999999999887 89999999876643   45999999999999765544334444443 57889


Q ss_pred             EEEeecCCCCChHHHHHHHHHHc
Q 028507          148 FIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       148 ~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++++||+++.|++++|+.+....
T Consensus       100 v~~~SAktg~gi~eLf~~l~~~~  122 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQNRI  122 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcCCE
Confidence            99999999999999999887543

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

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.45  E-value=2.3e-12  Score=86.95  Aligned_cols=114  Identities=36%  Similarity=0.405  Sum_probs=81.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCC-CccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQ-ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +||+++|..|+|||+|+.++....+...+. ++.+                           +........+.++.+++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            589999999999999999998777754333 3322                           222233456788999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      |+.++.++++.+  |...+......++|.++++||.|+.++......+..        .++++|++++.++.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGL--------EFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHH--------HHHHHhCCCcchhh
Confidence            999999888765  777666555566889999999998544344333332        34567888888874

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.44  E-value=8e-12  Score=98.06  Aligned_cols=83  Identities=17%  Similarity=0.175  Sum_probs=60.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEE---------------EEEEEEEcCCchh----
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT---------------VRLQLWDTAGQER----   70 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~----   70 (208)
                      ++|+++|.||+|||||+|+|++........|.++++.....+.+.+..               ..+.++|+||...    
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            799999999999999999999887655555666666555454444321               2589999999542    


Q ss_pred             ---hhhchhhhccCCcEEEEEEeCC
Q 028507           71 ---FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        71 ---~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                         ........++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence               1112333478999999999984

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.44  E-value=1.6e-12  Score=98.31  Aligned_cols=169  Identities=19%  Similarity=0.154  Sum_probs=112.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC---CCCCCCccceee--EEEE----------------EEEC------CEEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDF--LSKT----------------MYLE------DRTVR   59 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~---~~~~~~~~~~~~--~~~~----------------~~~~------~~~~~   59 (208)
                      .++++|.++|+...|||||..+|.+-..   .++.....++..  ....                ....      .-...
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            5689999999999999999999985422   111111111110  0000                0000      12346


Q ss_pred             EEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--CCHHHH
Q 028507           60 LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEEG  137 (208)
Q Consensus        60 ~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~~  137 (208)
                      +.|+|.|||+-+-.....-..-.|+.++|++++.|..--+..+.+-.+.-.  .-..++++-||+|+.....  .+.+++
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi--gik~iiIvQNKIDlV~~E~AlE~y~qI  165 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII--GIKNIIIVQNKIDLVSRERALENYEQI  165 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh--ccceEEEEecccceecHHHHHHHHHHH
Confidence            999999999987776666667889999999999654333333322222211  1255899999999976543  335566


Q ss_pred             HHHHHhc---CCeEEEeecCCCCChHHHHHHHHHHcCCCcccc
Q 028507          138 EAKSREL---NVMFIETSAKAGFNIKPLFRKIAAALPGMETLS  177 (208)
Q Consensus       138 ~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  177 (208)
                      ++|.+-.   +.+++++||..+.|++.+++.|.+.++.-.+..
T Consensus       166 k~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~rd~  208 (415)
T COG5257         166 KEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPERDL  208 (415)
T ss_pred             HHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCccCC
Confidence            6665533   569999999999999999999999997554443

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.44  E-value=5.5e-12  Score=96.33  Aligned_cols=162  Identities=19%  Similarity=0.189  Sum_probs=101.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC----cC---CCCCCCccceeeEEEEEEE-------CCEEEEEEEEEcCCchhhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD----KF---DNTYQATIGIDFLSKTMYL-------EDRTVRLQLWDTAGQERFRS   73 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~----~~---~~~~~~~~~~~~~~~~~~~-------~~~~~~~~i~D~~G~~~~~~   73 (208)
                      .++++.++|+..+|||||.++|..-    .|   +.+.....+.+.-...+.+       .+....+.++|+|||..+-.
T Consensus         6 ~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIR   85 (522)
T KOG0461|consen    6 SNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIR   85 (522)
T ss_pred             ceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHH
Confidence            3599999999999999999998732    22   3333344444433333322       23456799999999988776


Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-H--HHHHHHHHh---c---
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-I--EEGEAKSRE---L---  144 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-~--~~~~~~~~~---~---  144 (208)
                      .+.....-.|..++|+|+....  ......-..+.....  ...++|+||+|...+.+.. .  .......+.   .   
T Consensus        86 tiiggaqiiDlm~lviDv~kG~--QtQtAEcLiig~~~c--~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~  161 (522)
T KOG0461|consen   86 TIIGGAQIIDLMILVIDVQKGK--QTQTAECLIIGELLC--KKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFD  161 (522)
T ss_pred             HHHhhhheeeeeeEEEehhccc--ccccchhhhhhhhhc--cceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcC
Confidence            6666667789999999998421  111111122222222  4467777999986653321 1  111111111   1   


Q ss_pred             -CCeEEEeecCCC----CChHHHHHHHHHHcCCC
Q 028507          145 -NVMFIETSAKAG----FNIKPLFRKIAAALPGM  173 (208)
Q Consensus       145 -~~~~~~~sa~~~----~~i~~~~~~l~~~~~~~  173 (208)
                       +.+++++|+++|    +.+.++.+.|...+.+-
T Consensus       162 g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P  195 (522)
T KOG0461|consen  162 GNSPIVEVSAADGYFKEEMIQELKEALESRIFEP  195 (522)
T ss_pred             CCCceeEEecCCCccchhHHHHHHHHHHHhhcCC
Confidence             259999999999    78888888887777543

>TIGR00101 ureG urease accessory protein UreG

Probab=99.43  E-value=6.3e-12  Score=91.80  Aligned_cols=100  Identities=19%  Similarity=0.184  Sum_probs=64.7

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE--EEEEeCCCCCcccCCCHH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVII--VLVGNKTDLVEKRQVSIE  135 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi--ivv~nK~D~~~~~~~~~~  135 (208)
                      ....++++.|..-......   .-+|.+|.|+|+.+.+....  .....        +..  ++++||+|+.+......+
T Consensus        92 ~D~iiIEt~G~~l~~~~~~---~l~~~~i~vvD~~~~~~~~~--~~~~q--------i~~ad~~~~~k~d~~~~~~~~~~  158 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP---ELADLTIFVIDVAAGDKIPR--KGGPG--------ITRSDLLVINKIDLAPMVGADLG  158 (199)
T ss_pred             CCEEEEECCCCCcccccch---hhhCcEEEEEEcchhhhhhh--hhHhH--------hhhccEEEEEhhhccccccccHH
Confidence            3567788888432222211   12688999999986544221  11112        223  788899999754333344


Q ss_pred             HHHHHHHh--cCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          136 EGEAKSRE--LNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       136 ~~~~~~~~--~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ...+.++.  .+.+++++|+++|.|++++|++|.+.+
T Consensus       159 ~~~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       159 VMERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             HHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            44555554  356999999999999999999998765

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.43  E-value=2.2e-12  Score=111.04  Aligned_cols=115  Identities=20%  Similarity=0.200  Sum_probs=75.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc--CCC--------------CCCCccceeeEEEEEE--ECCEEEEEEEEEcCCchh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK--FDN--------------TYQATIGIDFLSKTMY--LEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~--~~~--------------~~~~~~~~~~~~~~~~--~~~~~~~~~i~D~~G~~~   70 (208)
                      -.+|+++|+.++|||||+.+|+...  ...              +.....++......+.  +.+..+.++++||||+.+
T Consensus        20 iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~d   99 (731)
T PRK07560         20 IRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVD   99 (731)
T ss_pred             ccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCccC
Confidence            3589999999999999999997421  110              0011122222222222  244457899999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      |.......+..+|++|+|+|+...-.......| .....   .++|.++++||+|+.
T Consensus       100 f~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~-~~~~~---~~~~~iv~iNK~D~~  152 (731)
T PRK07560        100 FGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVL-RQALR---ERVKPVLFINKVDRL  152 (731)
T ss_pred             hHHHHHHHHHhcCEEEEEEECCCCCCccHHHHH-HHHHH---cCCCeEEEEECchhh
Confidence            988888889999999999999853222222222 22222   236778999999975

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.42  E-value=1.1e-12  Score=114.33  Aligned_cols=116  Identities=19%  Similarity=0.234  Sum_probs=78.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC--C--------------CCCCCccceeeEEEEEEE--------------CCEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF--D--------------NTYQATIGIDFLSKTMYL--------------EDRT   57 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~--~--------------~~~~~~~~~~~~~~~~~~--------------~~~~   57 (208)
                      +-.+|+|+|+.++|||||+++|+...-  .              .+.....++......+.+              ....
T Consensus        18 ~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (843)
T PLN00116         18 NIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNE   97 (843)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCCCc
Confidence            346999999999999999999984321  0              011112222322223332              1235


Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      +.++++|||||.+|.......+..+|++|+|+|+.+.-.......|    +.....++|+++++||+|..
T Consensus        98 ~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~----~~~~~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         98 YLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVL----RQALGERIRPVLTVNKMDRC  163 (843)
T ss_pred             eEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHH----HHHHHCCCCEEEEEECCccc
Confidence            7899999999999998888889999999999999854222222222    22223458999999999986

>PRK13768 GTPase; Provisional

Probab=99.41  E-value=2.8e-12  Score=97.08  Aligned_cols=115  Identities=23%  Similarity=0.175  Sum_probs=71.2

Q ss_pred             EEEEEEcCCchhhh---hchhhh---ccC--CcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           59 RLQLWDTAGQERFR---SLIPSY---IRD--SSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        59 ~~~i~D~~G~~~~~---~~~~~~---~~~--~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      .+.+||+||..+..   ..+..+   +..  .+++++|+|+........ ...++..+......++|+++|+||+|+...
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~  177 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSE  177 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCc
Confidence            58999999976632   222222   222  899999999964332222 222222222211246999999999998765


Q ss_pred             cCCCHH--HHH------------------------HHHHhcC--CeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          130 RQVSIE--EGE------------------------AKSRELN--VMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       130 ~~~~~~--~~~------------------------~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      .+....  ...                        ......+  .+++++|++++.|+++++++|.+.++.-
T Consensus       178 ~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~~~  249 (253)
T PRK13768        178 EELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFCGG  249 (253)
T ss_pred             hhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcCCC
Confidence            332110  000                        0112223  4889999999999999999999988643

>PTZ00416 elongation factor 2; Provisional

Probab=99.41  E-value=1.5e-12  Score=113.33  Aligned_cols=116  Identities=19%  Similarity=0.257  Sum_probs=77.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc--CC--------------CCCCCccceeeEEEEEEEC--------CEEEEEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK--FD--------------NTYQATIGIDFLSKTMYLE--------DRTVRLQLW   63 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~--~~--------------~~~~~~~~~~~~~~~~~~~--------~~~~~~~i~   63 (208)
                      +-.+|+|+|+.++|||||+++|+...  ..              .+.....++......+.+.        +..+.++++
T Consensus        18 ~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~li   97 (836)
T PTZ00416         18 QIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLI   97 (836)
T ss_pred             CcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEEE
Confidence            34599999999999999999998521  10              0111122222222233332        225679999


Q ss_pred             EcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           64 DTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        64 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      ||||+.+|.......++.+|++|+|+|+.+.-... ....+..+.   ..++|+++++||+|+.
T Consensus        98 DtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~-t~~~~~~~~---~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         98 DSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQ-TETVLRQAL---QERIRPVLFINKVDRA  157 (836)
T ss_pred             cCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCcc-HHHHHHHHH---HcCCCEEEEEEChhhh
Confidence            99999999888888899999999999998532211 122222222   2358999999999986

>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=99.39  E-value=5.9e-13  Score=99.65  Aligned_cols=112  Identities=23%  Similarity=0.132  Sum_probs=61.3

Q ss_pred             EEEEEEcCCchhhhhchhhhc--------cCCcEEEEEEeCCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           59 RLQLWDTAGQERFRSLIPSYI--------RDSSVAVVVYDVASRQS-FLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      .+.++||||+.++...+....        ...-++|+++|+....+ ...+..++..+....+.+.|.+.|+||+|+.+.
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            599999999988766554432        34568888999863322 223344444444333346999999999999762


Q ss_pred             cC----------------------CCHHHHHHHHHhcCC--eEEEeecCCCCChHHHHHHHHHHc
Q 028507          130 RQ----------------------VSIEEGEAKSRELNV--MFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       130 ~~----------------------~~~~~~~~~~~~~~~--~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ..                      ....+.......++.  .++.+|+.+++++.+++..+.+.+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            20                      000111111122232  799999999999999999887654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.39  E-value=1.2e-11  Score=100.13  Aligned_cols=162  Identities=19%  Similarity=0.212  Sum_probs=120.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +-+++.++|+.++|||.|++.++++.+......+....+....+...+....+.+-|.+-. ...-+.... ..+|++++
T Consensus       424 ~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~  501 (625)
T KOG1707|consen  424 KVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACL  501 (625)
T ss_pred             eeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEE
Confidence            3578889999999999999999998887766666666666666666666666777777643 222223333 78999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +||.++|.+|..+...++.-...  ...|+++|++|.|+.+..+.......+++.++++ +-+.+|.+...+ .++|..|
T Consensus       502 ~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL  578 (625)
T KOG1707|consen  502 VYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKL  578 (625)
T ss_pred             ecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHH
Confidence            99999999999988777665433  5699999999999977654444444888999998 445666664333 8999999


Q ss_pred             HHHcCCCc
Q 028507          167 AAALPGME  174 (208)
Q Consensus       167 ~~~~~~~~  174 (208)
                      ..+...-+
T Consensus       579 ~~~A~~Ph  586 (625)
T KOG1707|consen  579 ATMAQYPH  586 (625)
T ss_pred             HHhhhCCC
Confidence            98876444

>cd01900 YchF YchF subfamily

Probab=99.36  E-value=1.2e-11  Score=94.02  Aligned_cols=81  Identities=16%  Similarity=0.172  Sum_probs=59.0

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEE---------------EEEEEEEcCCchh------
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT---------------VRLQLWDTAGQER------   70 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~------   70 (208)
                      |+|+|.|++|||||+|+|++........+.++++.....+.+.+..               ..+.++|+||...      
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            5799999999999999999887765556666666666555554421               2599999999542      


Q ss_pred             -hhhchhhhccCCcEEEEEEeCC
Q 028507           71 -FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        71 -~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                       ........++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence             1112333468899999999874

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.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.36  E-value=1.1e-11  Score=100.29  Aligned_cols=153  Identities=25%  Similarity=0.319  Sum_probs=104.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc--C---------------------------CCCCCCccceeeEEEEEEECCEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK--F---------------------------DNTYQATIGIDFLSKTMYLEDRTV   58 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~--~---------------------------~~~~~~~~~~~~~~~~~~~~~~~~   58 (208)
                      ..+.++++|+..+|||||+.+|+..-  .                           ....++..+++......+++....
T Consensus       176 ~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~~~  255 (603)
T KOG0458|consen  176 DHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESKSK  255 (603)
T ss_pred             cceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecCce
Confidence            57999999999999999999987321  0                           111223344555555666666677


Q ss_pred             EEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh---hHHH--HHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC
Q 028507           59 RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ---SFLN--TSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS  133 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~--~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~  133 (208)
                      .++|+|+|||..|..........+|+.|+|+|++..+   +|+.  ..+.+..+.+..+ -..++|++||+|+.+=.+-.
T Consensus       256 ~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg-i~qlivaiNKmD~V~Wsq~R  334 (603)
T KOG0458|consen  256 IVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG-ISQLIVAINKMDLVSWSQDR  334 (603)
T ss_pred             eEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC-cceEEEEeecccccCccHHH
Confidence            8999999999999888888889999999999998421   2221  2223333334443 24478888999998755544


Q ss_pred             HHHHHH----HH-HhcC-----CeEEEeecCCCCChHH
Q 028507          134 IEEGEA----KS-RELN-----VMFIETSAKAGFNIKP  161 (208)
Q Consensus       134 ~~~~~~----~~-~~~~-----~~~~~~sa~~~~~i~~  161 (208)
                      ++++..    |. ...|     +.++++|+.+|+|+-.
T Consensus       335 F~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k  372 (603)
T KOG0458|consen  335 FEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIK  372 (603)
T ss_pred             HHHHHHHHHHHHHHhcCcccCCcceEecccccCCcccc
Confidence            444433    33 2223     4799999999998654

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.35  E-value=1.3e-11  Score=97.02  Aligned_cols=159  Identities=16%  Similarity=0.135  Sum_probs=77.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCcc---ceeeEEEEEEECCEEEEEEEEEcCCchhhhhch-----hhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATI---GIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-----PSYI   79 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----~~~~   79 (208)
                      ..++|+|+|.+|+|||||||+|.+-.-.......+   ..+.......... .-.+.+||.||.....-..     ..-+
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~-~pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPK-FPNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCC-CCCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            46899999999999999999997643221111111   1111111111111 1149999999954322111     1225


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCC-------cccCCCHH----HHHHHHHh----
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV-------EKRQVSIE----EGEAKSRE----  143 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~piivv~nK~D~~-------~~~~~~~~----~~~~~~~~----  143 (208)
                      ...|.+|++.+.    .|..-.-++ ..+..   .++|.++|-+|+|..       .++....+    +++..+.+    
T Consensus       113 ~~yD~fiii~s~----rf~~ndv~La~~i~~---~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k  185 (376)
T PF05049_consen  113 YRYDFFIIISSE----RFTENDVQLAKEIQR---MGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQK  185 (376)
T ss_dssp             GG-SEEEEEESS----S--HHHHHHHHHHHH---TT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHC
T ss_pred             cccCEEEEEeCC----CCchhhHHHHHHHHH---cCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHH
Confidence            678988887763    233322222 22332   358999999999961       11222222    22222222    


Q ss_pred             cCC---eEEEeecCCCC--ChHHHHHHHHHHcCCCc
Q 028507          144 LNV---MFIETSAKAGF--NIKPLFRKIAAALPGME  174 (208)
Q Consensus       144 ~~~---~~~~~sa~~~~--~i~~~~~~l~~~~~~~~  174 (208)
                      .|.   ++|-+|+.+-.  ++..+.+.|...++...
T Consensus       186 ~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~K  221 (376)
T PF05049_consen  186 AGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHK  221 (376)
T ss_dssp             TT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGG
T ss_pred             cCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHH
Confidence            233   78999988754  46677888888776553

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.

>cd01882 BMS1 Bms1

Probab=99.34  E-value=3.2e-11  Score=89.88  Aligned_cols=139  Identities=12%  Similarity=0.128  Sum_probs=80.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+...|+++|++|+|||||++.+....-........+ ..   .+ .......+.++|+||..  ..+ ......+|+++
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g-~i---~i-~~~~~~~i~~vDtPg~~--~~~-l~~ak~aDvVl  108 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKG-PI---TV-VTGKKRRLTFIECPNDI--NAM-IDIAKVADLVL  108 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCccccccc-cE---EE-EecCCceEEEEeCCchH--HHH-HHHHHhcCEEE
Confidence            4457899999999999999999986422111111111 01   11 11133568999999854  222 23468899999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCCCCcccCCC---HHHHHH-HHHh--cCCeEEEeecCCCC
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVII-VLVGNKTDLVEKRQVS---IEEGEA-KSRE--LNVMFIETSAKAGF  157 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~nK~D~~~~~~~~---~~~~~~-~~~~--~~~~~~~~sa~~~~  157 (208)
                      +|+|++....... ..++..+..   .+.|. ++|+||+|+.+.....   ..+++. +..+  .+.+++.+||++.-
T Consensus       109 lviDa~~~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         109 LLIDASFGFEMET-FEFLNILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             EEEecCcCCCHHH-HHHHHHHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence            9999975322211 222333322   23674 5599999986432211   111111 2211  23589999998864

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.34  E-value=2.7e-11  Score=89.25  Aligned_cols=151  Identities=17%  Similarity=0.249  Sum_probs=84.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC--------CCCC---Ccccee-eEEEEEEECC--------------------E
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD--------NTYQ---ATIGID-FLSKTMYLED--------------------R   56 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~--------~~~~---~~~~~~-~~~~~~~~~~--------------------~   56 (208)
                      -..|+|+|+.|+|||||+++++.....        ....   ...... .....+...+                    .
T Consensus        22 ~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~~~~~  101 (207)
T TIGR00073        22 LVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALEDLPLD  101 (207)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHHhccC
Confidence            468899999999999999998743110        0000   000000 0000000000                    0


Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHH
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEE  136 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~  136 (208)
                      ...+.|+++.|.-...   ..+....+..+.|+|+.+.+.  .+... ...     ...|.++++||+|+.+.......+
T Consensus       102 ~~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~--~~~~~-~~~-----~~~a~iiv~NK~Dl~~~~~~~~~~  170 (207)
T TIGR00073       102 DIDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDD--KPLKY-PGM-----FKEADLIVINKADLAEAVGFDVEK  170 (207)
T ss_pred             CCCEEEEecCCCcCCC---cccccccCeEEEEEecCcccc--hhhhh-HhH-----HhhCCEEEEEHHHccccchhhHHH
Confidence            2356777777721100   111123455667888874432  11111 111     125678999999997543333344


Q ss_pred             HHHHHHhcC--CeEEEeecCCCCChHHHHHHHHHHc
Q 028507          137 GEAKSRELN--VMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       137 ~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ........+  .+++++|++++.|++++++++.+..
T Consensus       171 ~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~~  206 (207)
T TIGR00073       171 MKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQV  206 (207)
T ss_pred             HHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            444444443  7999999999999999999998753

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

>cd00066 G-alpha G protein alpha subunit

Probab=99.32  E-value=8e-11  Score=92.05  Aligned_cols=115  Identities=20%  Similarity=0.261  Sum_probs=79.9

Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCCh----------hhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCC
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASR----------QSFLNTSKWIDEVRTER-GSDVIIVLVGNKTD  125 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D  125 (208)
                      .+.+.+||++|+...+..|..++.+++++|+|+|+++.          +.+......+..+-... -.++|+++++||.|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D  239 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKD  239 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChH
Confidence            46799999999999999999999999999999999874          23333333333333221 15699999999999


Q ss_pred             CCccc----------------CCCHHHHHHHHHh----------cCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          126 LVEKR----------------QVSIEEGEAKSRE----------LNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       126 ~~~~~----------------~~~~~~~~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      +.++.                .-...++..+...          ..+..+.++|.+..++..+|+.+.+.+.
T Consensus       240 ~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~  311 (317)
T cd00066         240 LFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIIL  311 (317)
T ss_pred             HHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHH
Confidence            75321                1223343333322          1245577888889999999988877664

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.32  E-value=6.9e-12  Score=90.67  Aligned_cols=147  Identities=24%  Similarity=0.326  Sum_probs=95.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-----hhchhhhccCC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-----RSLIPSYIRDS   82 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~~   82 (208)
                      .-||+++|.+|+|||++-..+..+... ....++.++++....+.+-| ...+++||++|++.+     .......+.+.
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflG-nl~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLG-NLVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhh-hheeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            468999999999999987776655432 23344555666665555544 367999999998853     22445568899


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHH---HHHHhcCCCCcEEEEEeCCCCCcccC--CCHHHHHHH----HHhcCCeEEEeec
Q 028507           83 SVAVVVYDVASRQSFLNTSKWID---EVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEEGEAK----SRELNVMFIETSA  153 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~---~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~~~~~----~~~~~~~~~~~sa  153 (208)
                      +++++|||++..+-..++..+-.   .+.++ .+...+++..+|+|+.....  ....+....    .....+.++++|.
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~-SP~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Tsi  161 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQN-SPEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSI  161 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhc-CCcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccch
Confidence            99999999997655444544444   33333 36677899999999976432  222222222    2223456777777


Q ss_pred             CCCC
Q 028507          154 KAGF  157 (208)
Q Consensus       154 ~~~~  157 (208)
                      ++..
T Consensus       162 wDet  165 (295)
T KOG3886|consen  162 WDET  165 (295)
T ss_pred             hhHH
Confidence            6643

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

Probab=99.30  E-value=4e-11  Score=91.90  Aligned_cols=142  Identities=13%  Similarity=0.204  Sum_probs=77.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCC----------CCCccceeeEEEEEEECCEEEEEEEEEcCCchh--------
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNT----------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER--------   70 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------   70 (208)
                      +++|+|+|.+|+|||||+|.|++......          ...+..+......+.-++..+.++|+||||...        
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~   83 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCW   83 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhh
Confidence            58999999999999999999997654222          112333444445556677888999999999321        


Q ss_pred             ----------hhhchh---------hhccCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           71 ----------FRSLIP---------SYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        71 ----------~~~~~~---------~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                                |.....         ..=..+|++++.++.+.. ++..+ ...+..+.    ..+++|.|+.|.|.....
T Consensus        84 ~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~-~L~~~Di~~mk~Ls----~~vNvIPvIaKaD~lt~~  158 (281)
T PF00735_consen   84 EPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGH-GLKPLDIEFMKRLS----KRVNVIPVIAKADTLTPE  158 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSS-SS-HHHHHHHHHHT----TTSEEEEEESTGGGS-HH
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCc-cchHHHHHHHHHhc----ccccEEeEEecccccCHH
Confidence                      111000         011367899999998753 11111 12233332    348899999999986544


Q ss_pred             CC--CHHHHHHHHHhcCCeEEEeecCC
Q 028507          131 QV--SIEEGEAKSRELNVMFIETSAKA  155 (208)
Q Consensus       131 ~~--~~~~~~~~~~~~~~~~~~~sa~~  155 (208)
                      ++  ....+.......++.+|......
T Consensus       159 el~~~k~~i~~~l~~~~I~~f~f~~~~  185 (281)
T PF00735_consen  159 ELQAFKQRIREDLEENNIKIFDFPEDD  185 (281)
T ss_dssp             HHHHHHHHHHHHHHHTT--S-------
T ss_pred             HHHHHHHHHHHHHHHcCceeecccccc
Confidence            32  23444555666788766644433

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.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.29  E-value=5.5e-11  Score=93.65  Aligned_cols=155  Identities=20%  Similarity=0.152  Sum_probs=109.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC---CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      -|+..|+-..|||||+..+.+...   ++.....++++......+..+  ..+.|+|.||++++-...-..+...|..++
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d--~~~~fIDvpgh~~~i~~miag~~~~d~alL   79 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLED--GVMGFIDVPGHPDFISNLLAGLGGIDYALL   79 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCC--CceEEeeCCCcHHHHHHHHhhhcCCceEEE
Confidence            467789999999999999987544   445555666666665555555  479999999999998888888899999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc---CCeEEEeecCCCCChHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL---NVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~  164 (208)
                      |+++++.  ..........+....+ ....++|+||+|..++..+ .+...+....+   ..+++.+|+++|+||+++.+
T Consensus        80 vV~~deG--l~~qtgEhL~iLdllg-i~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~  155 (447)
T COG3276          80 VVAADEG--LMAQTGEHLLILDLLG-IKNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTSAKTGRGIEELKN  155 (447)
T ss_pred             EEeCccC--cchhhHHHHHHHHhcC-CCceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccccccCCCHHHHHH
Confidence            9999732  2222222223333333 1335888899998765422 22222222222   35889999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      .|.+...
T Consensus       156 ~l~~L~~  162 (447)
T COG3276         156 ELIDLLE  162 (447)
T ss_pred             HHHHhhh
Confidence            9999885

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.29  E-value=4.7e-11  Score=89.44  Aligned_cols=161  Identities=17%  Similarity=0.166  Sum_probs=105.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc---Cc-------C------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY---DK-------F------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~---~~-------~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .+.++|..+|+.+.|||||..++..   .+       |      +.+...  +++.....+.+......+..+|+|||.+
T Consensus        10 kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~r--GITIntahveyet~~rhyahVDcPGHaD   87 (394)
T COG0050          10 KPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKAR--GITINTAHVEYETANRHYAHVDCPGHAD   87 (394)
T ss_pred             CCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhc--CceeccceeEEecCCceEEeccCCChHH
Confidence            4679999999999999999887752   11       1      222233  3444444444544446789999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccC---CCHHHHHHHHHhcCC
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQ---VSIEEGEAKSRELNV  146 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~---~~~~~~~~~~~~~~~  146 (208)
                      |-........+.|+.|+|++++|..-... .+ .-.+.+..  .+| ++++.||+|+.+..+   +-..+...+..++++
T Consensus        88 YvKNMItgAaqmDgAILVVsA~dGpmPqT-rE-HiLlarqv--Gvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f  163 (394)
T COG0050          88 YVKNMITGAAQMDGAILVVAATDGPMPQT-RE-HILLARQV--GVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGF  163 (394)
T ss_pred             HHHHHhhhHHhcCccEEEEEcCCCCCCcc-hh-hhhhhhhc--CCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCC
Confidence            98888777889999999999986321111 11 11122222  365 667779999987543   224566777777765


Q ss_pred             -----eEEEeecCC---CC-----ChHHHHHHHHHHcCCC
Q 028507          147 -----MFIETSAKA---GF-----NIKPLFRKIAAALPGM  173 (208)
Q Consensus       147 -----~~~~~sa~~---~~-----~i~~~~~~l~~~~~~~  173 (208)
                           +++.-|+.-   +.     .|.++++.+...++.-
T Consensus       164 ~gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip~P  203 (394)
T COG0050         164 PGDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIPTP  203 (394)
T ss_pred             CCCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCCCC
Confidence                 677777553   11     2567777777766543

>smart00275 G_alpha G protein alpha subunit

Probab=99.29  E-value=1.8e-10  Score=90.77  Aligned_cols=115  Identities=15%  Similarity=0.196  Sum_probs=79.5

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh----------hHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCC
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ----------SFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDL  126 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~----------s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~  126 (208)
                      +.+.+||.+|+...+..|..++.+++++|||+|+++.+          .+......+..+-.. .-.++|++|++||.|+
T Consensus       184 ~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~  263 (342)
T smart00275      184 LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDL  263 (342)
T ss_pred             eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHh
Confidence            56899999999999999999999999999999999642          344433344444332 1256999999999998


Q ss_pred             Cccc--------------C-CCHHHHHHHHHh-----------cCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          127 VEKR--------------Q-VSIEEGEAKSRE-----------LNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       127 ~~~~--------------~-~~~~~~~~~~~~-----------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ..+.              . .....+..+...           ..+..+.++|.+..++..+|+.+...+.+
T Consensus       264 ~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~  335 (342)
T smart00275      264 FEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQ  335 (342)
T ss_pred             HHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHH
Confidence            5421              0 122333332211           12456778888899999999888776643

Subunit of G proteins that contains the guanine nucleotide binding site

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.29  E-value=7.9e-11  Score=83.84  Aligned_cols=63  Identities=19%  Similarity=0.261  Sum_probs=43.1

Q ss_pred             EEEEEEcCCchh----hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 028507           59 RLQLWDTAGQER----FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT  124 (208)
Q Consensus        59 ~~~i~D~~G~~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~  124 (208)
                      .+.|+|+||...    ...++..++..+|++|+|.+++...+-.....+.+......   ..+++|.||.
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~---~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDK---SRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTC---SSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCC---CeEEEEEcCC
Confidence            389999999653    33567778899999999999997655444444444443332   3388888884

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 ....

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.27  E-value=6.4e-11  Score=92.35  Aligned_cols=106  Identities=14%  Similarity=0.082  Sum_probs=66.8

Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--CH
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--SI  134 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~~  134 (208)
                      .+.+.|+||+|...-...   ....+|.+++|.+....+.+..+.   ..+...     .-++|+||+|+......  ..
T Consensus       148 g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k---~gi~E~-----aDIiVVNKaDl~~~~~a~~~~  216 (332)
T PRK09435        148 GYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIK---KGIMEL-----ADLIVINKADGDNKTAARRAA  216 (332)
T ss_pred             CCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHH---hhhhhh-----hheEEeehhcccchhHHHHHH
Confidence            367999999996633222   466799999997744333333322   212211     12788899998654321  11


Q ss_pred             HHHHHHHHh-------cCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          135 EEGEAKSRE-------LNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       135 ~~~~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      .+.......       +..+++.+|++++.|++++++.|.+.+..+
T Consensus       217 ~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l  262 (332)
T PRK09435        217 AEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAAL  262 (332)
T ss_pred             HHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            222222222       225899999999999999999999977533

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

Probab=99.26  E-value=1.1e-11  Score=91.94  Aligned_cols=114  Identities=21%  Similarity=0.262  Sum_probs=66.0

Q ss_pred             EEEEEEEcCCchh-h-----hhchhhhcc--CCcEEEEEEeCC---ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           58 VRLQLWDTAGQER-F-----RSLIPSYIR--DSSVAVVVYDVA---SRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        58 ~~~~i~D~~G~~~-~-----~~~~~~~~~--~~d~~i~v~d~~---~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                      +...++||||+-+ |     ...+-..+.  ..-++++|+|..   +|.+|..  ..+-.-.-.+.-..|.++++||+|+
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMS--NMlYAcSilyktklp~ivvfNK~Dv  193 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMS--NMLYACSILYKTKLPFIVVFNKTDV  193 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHH--HHHHHHHHHHhccCCeEEEEecccc
Confidence            5689999999654 1     111211222  334667777764   3433332  1111122233345999999999998


Q ss_pred             CcccC-----CCHHHHHHHHHh---------------------cCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          127 VEKRQ-----VSIEEGEAKSRE---------------------LNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       127 ~~~~~-----~~~~~~~~~~~~---------------------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ....=     -.++.-++...+                     .++..+-+|+.+|.|.+++|..+.+.+.++
T Consensus       194 ~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  194 SDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             cccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            75310     001111111110                     145789999999999999999998877554

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.26  E-value=2.7e-11  Score=102.48  Aligned_cols=117  Identities=21%  Similarity=0.261  Sum_probs=83.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cCC----------------CCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KFD----------------NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      .+-.+|.|+|+.++|||||..+|+..  ...                .+..+..+++-....+.+.+ .+.++++|||||
T Consensus         8 ~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~-~~~iNlIDTPGH   86 (697)
T COG0480           8 ERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKG-DYRINLIDTPGH   86 (697)
T ss_pred             ccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcC-ceEEEEeCCCCc
Confidence            45679999999999999999998732  111                11123344445555555554 478999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      -+|..-....++-+|++|+|+|+.+.-....-.-|.+    ....++|.++++||+|...
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rq----a~~~~vp~i~fiNKmDR~~  142 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQ----ADKYGVPRILFVNKMDRLG  142 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHH----HhhcCCCeEEEEECccccc
Confidence            9999999999999999999999984322222222322    3334599999999999864

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

Probab=99.24  E-value=7e-10  Score=86.24  Aligned_cols=84  Identities=18%  Similarity=0.235  Sum_probs=62.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC----------------EEEEEEEEEcCCchh--
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED----------------RTVRLQLWDTAGQER--   70 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~i~D~~G~~~--   70 (208)
                      .+++.|||.||||||||+|+++.........|..+++.....+.+..                ....+.|+|.+|.-.  
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            37899999999999999999998776556667766666555443321                234699999999442  


Q ss_pred             -----hhhchhhhccCCcEEEEEEeCC
Q 028507           71 -----FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        71 -----~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                           +.......++.+|+++.|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence                 3334455688999999999987

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

Probab=99.23  E-value=3.6e-10  Score=93.90  Aligned_cols=119  Identities=13%  Similarity=0.181  Sum_probs=74.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCC--CCccceeeEEEEEEECCEEEEEEEEEcCCchhhh-------hc---h
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTY--QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR-------SL---I   75 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~---~   75 (208)
                      ..++|+|+|.+|+||||++|+|++.......  .+.++ .........++  ..+.|+||||.....       ..   .
T Consensus       117 fslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TT-r~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk~I  193 (763)
T TIGR00993       117 FSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTT-SVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILSSV  193 (763)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhccccccccCCCCCce-EEEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHHHH
Confidence            3579999999999999999999987643222  12222 22222223344  569999999966421       11   1


Q ss_pred             hhhcc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC--cEEEEEeCCCCCcc
Q 028507           76 PSYIR--DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDV--IIVLVGNKTDLVEK  129 (208)
Q Consensus        76 ~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--piivv~nK~D~~~~  129 (208)
                      ..++.  ..|++|+|..++.......-..++..+...++..+  .+|||+|+.|..++
T Consensus       194 k~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lpp  251 (763)
T TIGR00993       194 KKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAPP  251 (763)
T ss_pred             HHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCCC
Confidence            11222  58999999887632221122345666666665433  37888999998763

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.22  E-value=6.1e-11  Score=98.35  Aligned_cols=161  Identities=19%  Similarity=0.186  Sum_probs=102.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC------------CE----EEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE------------DR----TVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~------------~~----~~~~~i~D~~G~~~   70 (208)
                      .+..=+||+|+..+|||-|+..+.+-.+......+++-......+...            ++    .=.+.++|||||+.
T Consensus       473 lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEs  552 (1064)
T KOG1144|consen  473 LRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHES  552 (1064)
T ss_pred             cCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchh
Confidence            455679999999999999999998765543333222211111111110            00    11389999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC-------------CC----
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ-------------VS----  133 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~-------------~~----  133 (208)
                      |..+..+....||.+|+|+|+...  ++.  ..+..|......+.|.||..||+|..=...             -.    
T Consensus       553 FtnlRsrgsslC~~aIlvvdImhG--lep--qtiESi~lLR~rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~v~  628 (1064)
T KOG1144|consen  553 FTNLRSRGSSLCDLAILVVDIMHG--LEP--QTIESINLLRMRKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKDVQ  628 (1064)
T ss_pred             hhhhhhccccccceEEEEeehhcc--CCc--chhHHHHHHHhcCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHHHH
Confidence            999999999999999999999732  222  112233333445699999999999742100             00    


Q ss_pred             ------HHH-HHHHHHh-c-------------CCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          134 ------IEE-GEAKSRE-L-------------NVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       134 ------~~~-~~~~~~~-~-------------~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                            ... +..|+.+ +             -+.++++||.+|+||-+|+-+|++...
T Consensus       629 ~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQ  687 (1064)
T KOG1144|consen  629 NEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQ  687 (1064)
T ss_pred             HHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHH
Confidence                  000 0111110 0             135799999999999999999887654

>smart00053 DYNc Dynamin, GTPase

Probab=99.20  E-value=4.9e-10  Score=83.68  Aligned_cols=69  Identities=20%  Similarity=0.280  Sum_probs=42.4

Q ss_pred             EEEEEEEcCCchh-------------hhhchhhhcc-CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 028507           58 VRLQLWDTAGQER-------------FRSLIPSYIR-DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNK  123 (208)
Q Consensus        58 ~~~~i~D~~G~~~-------------~~~~~~~~~~-~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK  123 (208)
                      ..+.++|+||...             ...+...++. ..+++++|+|+...-.-.........+..   ...++++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~---~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP---QGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH---cCCcEEEEEEC
Confidence            3599999999642             1224455666 45699999988632111121222233322   35899999999


Q ss_pred             CCCCcc
Q 028507          124 TDLVEK  129 (208)
Q Consensus       124 ~D~~~~  129 (208)
                      .|..++
T Consensus       202 ~D~~~~  207 (240)
T smart00053      202 LDLMDE  207 (240)
T ss_pred             CCCCCc
Confidence            998754

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

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

Probab=99.19  E-value=8.5e-11  Score=83.33  Aligned_cols=80  Identities=28%  Similarity=0.229  Sum_probs=56.3

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC--CeEEEeecCCCCChH
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN--VMFIETSAKAGFNIK  160 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~  160 (208)
                      +.-|+|+|++..+-  .-..-+.-+..      -=++|+||.|+++.-..+.+...+.+++.+  .+++++|.++|+|++
T Consensus       119 ~~~v~VidvteGe~--~P~K~gP~i~~------aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~  190 (202)
T COG0378         119 HLRVVVIDVTEGED--IPRKGGPGIFK------ADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLD  190 (202)
T ss_pred             ceEEEEEECCCCCC--CcccCCCceeE------eeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHH
Confidence            37888888885421  00000111111      127888999999888887777777777654  699999999999999


Q ss_pred             HHHHHHHHHc
Q 028507          161 PLFRKIAAAL  170 (208)
Q Consensus       161 ~~~~~l~~~~  170 (208)
                      +++.|+....
T Consensus       191 ~~~~~i~~~~  200 (202)
T COG0378         191 EWLRFIEPQA  200 (202)
T ss_pred             HHHHHHHhhc
Confidence            9999987654

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.18  E-value=2.7e-10  Score=88.53  Aligned_cols=104  Identities=19%  Similarity=0.098  Sum_probs=64.8

Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHH
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEE  136 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~  136 (208)
                      .+.+.|+||+|.....   ...+..+|.++++....   +-+.+......+.     .+|.++++||+|+..........
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~---~~~el~~~~~~l~-----~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPG---TGDDLQGIKAGLM-----EIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCC---ccHHHHHHHHHHh-----hhccEEEEEcccccchhHHHHHH
Confidence            3678999999854222   22456778888885433   3344444443332     36779999999986543211100


Q ss_pred             H------HHHHH---hcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          137 G------EAKSR---ELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       137 ~------~~~~~---~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      .      .....   .+..+++.+|++++.|+++++++|.+...
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            0      11111   12236899999999999999999988754

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.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.17  E-value=2.3e-09  Score=84.75  Aligned_cols=157  Identities=15%  Similarity=0.196  Sum_probs=92.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC----cCC-------------CCCCC---ccceeeE----EEEE-EECCEEEEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD----KFD-------------NTYQA---TIGIDFL----SKTM-YLEDRTVRLQLW   63 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~----~~~-------------~~~~~---~~~~~~~----~~~~-~~~~~~~~~~i~   63 (208)
                      .+-|.|+|+.++|||||+++|.+.    ...             ++..-   +++...+    ..++ ..++...++.++
T Consensus        17 ~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlI   96 (492)
T TIGR02836        17 DIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLV   96 (492)
T ss_pred             cEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEE
Confidence            578999999999999999999977    221             11111   1111111    1222 223445689999


Q ss_pred             EcCCchhhhh--------------c---------------hhhhcc-CCcEEEEEE-eCC----Chhh-HHHHHHHHHHH
Q 028507           64 DTAGQERFRS--------------L---------------IPSYIR-DSSVAVVVY-DVA----SRQS-FLNTSKWIDEV  107 (208)
Q Consensus        64 D~~G~~~~~~--------------~---------------~~~~~~-~~d~~i~v~-d~~----~~~s-~~~~~~~~~~i  107 (208)
                      ||+|...-..              -               .+..+. .+++.|+|. |.+    .++. .+.-.+++.++
T Consensus        97 DcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eL  176 (492)
T TIGR02836        97 DCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEEL  176 (492)
T ss_pred             ECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHH
Confidence            9999432100              0               122344 788888888 774    1112 22334555555


Q ss_pred             HHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCC--CCChHHHHHHHHHHc
Q 028507          108 RTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKA--GFNIKPLFRKIAAAL  170 (208)
Q Consensus       108 ~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~--~~~i~~~~~~l~~~~  170 (208)
                      ..   .++|.+++.|+.|-..+.  .......+...++.+++.+|+..  -+++..+++.++..+
T Consensus       177 k~---~~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL~EF  236 (492)
T TIGR02836       177 KE---LNKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVLYEF  236 (492)
T ss_pred             Hh---cCCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHHhcC
Confidence            54   459999999999943222  33334455567788877777654  345555555555444

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.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.15  E-value=3.3e-10  Score=89.16  Aligned_cols=132  Identities=20%  Similarity=0.213  Sum_probs=90.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhh--cCcC--------------------CCCCCCccceeeEEEEEEECCEEEEEEEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFM--YDKF--------------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWD   64 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~--~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D   64 (208)
                      .+.-..+|+-+|.+|||||-..|+  ++-.                    ..+.+..++++.....+.+++  ..+++.|
T Consensus        10 ~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~--~~iNLLD   87 (528)
T COG4108          10 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYAD--CLVNLLD   87 (528)
T ss_pred             hhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCC--eEEeccC
Confidence            356678999999999999999876  1111                    012234556666677777776  6799999


Q ss_pred             cCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc
Q 028507           65 TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL  144 (208)
Q Consensus        65 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~  144 (208)
                      ||||++|..-.-+.+..+|..|.|+|+.  ..++....  +.+.-+...++||+-++||.|.....  ..+...+....+
T Consensus        88 TPGHeDFSEDTYRtLtAvDsAvMVIDaA--KGiE~qT~--KLfeVcrlR~iPI~TFiNKlDR~~rd--P~ELLdEiE~~L  161 (528)
T COG4108          88 TPGHEDFSEDTYRTLTAVDSAVMVIDAA--KGIEPQTL--KLFEVCRLRDIPIFTFINKLDREGRD--PLELLDEIEEEL  161 (528)
T ss_pred             CCCccccchhHHHHHHhhheeeEEEecc--cCccHHHH--HHHHHHhhcCCceEEEeeccccccCC--hHHHHHHHHHHh
Confidence            9999999887777788999999999998  33443222  22222233679999999999974322  233334444455


Q ss_pred             CC
Q 028507          145 NV  146 (208)
Q Consensus       145 ~~  146 (208)
                      ++
T Consensus       162 ~i  163 (528)
T COG4108         162 GI  163 (528)
T ss_pred             Cc
Confidence            54

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.15  E-value=1.3e-10  Score=93.64  Aligned_cols=159  Identities=21%  Similarity=0.388  Sum_probs=121.8

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +.+++|+.|||..++|||+|+.+++.+.|.....+..+  .+.+++.+++..+.+.+.|.+|..     ...|...+|++
T Consensus        27 sipelk~givg~~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~~-----~aQft~wvdav   99 (749)
T KOG0705|consen   27 SIPELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGHP-----DAQFCQWVDAV   99 (749)
T ss_pred             ccchhheeeeecccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCCc-----hhhhhhhccce
Confidence            46899999999999999999999999998766555543  456666677777889999998843     24456788999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCc--ccCCCHHHHHHHH-HhcCCeEEEeecCCCCChHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVE--KRQVSIEEGEAKS-RELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~--~~~~~~~~~~~~~-~~~~~~~~~~sa~~~~~i~~  161 (208)
                      ||||...+.++|..+..+...+..+.. ..+|.++++++.-+..  .+....++....+ +...+.+|++++.+|.++..
T Consensus       100 Ifvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~r  179 (749)
T KOG0705|consen  100 VFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVER  179 (749)
T ss_pred             EEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHH
Confidence            999999999999999888888765543 5678888877654322  2334444444444 44567999999999999999


Q ss_pred             HHHHHHHHcC
Q 028507          162 LFRKIAAALP  171 (208)
Q Consensus       162 ~~~~l~~~~~  171 (208)
                      +|+.+...+.
T Consensus       180 vf~~~~~k~i  189 (749)
T KOG0705|consen  180 VFQEVAQKIV  189 (749)
T ss_pred             HHHHHHHHHH
Confidence            9998877664

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.13  E-value=3.6e-09  Score=77.84  Aligned_cols=154  Identities=20%  Similarity=0.268  Sum_probs=103.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-------hhchhhhccC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-------RSLIPSYIRD   81 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~   81 (208)
                      .-+++++|.|.+|||||+..++.-........+++.+...-.+.+++  ..+++.|.||.-+-       ....-...+.
T Consensus        62 daRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~g--a~IQllDLPGIieGAsqgkGRGRQviavArt  139 (364)
T KOG1486|consen   62 DARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNG--ANIQLLDLPGIIEGASQGKGRGRQVIAVART  139 (364)
T ss_pred             CeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecC--ceEEEecCcccccccccCCCCCceEEEEeec
Confidence            57999999999999999999987665444455556677777778887  45999999995532       2233345678


Q ss_pred             CcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCC----------------------------------------------
Q 028507           82 SSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSD----------------------------------------------  114 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~----------------------------------------------  114 (208)
                      +|.++.|.|++..+.-.. +...++.+.-.....                                              
T Consensus       140 aDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl~  219 (364)
T KOG1486|consen  140 ADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVLF  219 (364)
T ss_pred             ccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEEE
Confidence            999999999996554332 444444442221111                                              


Q ss_pred             -------------------CcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          115 -------------------VIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       115 -------------------~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                                         ++.+.|-||+|     +++.++..+.+.+-+-.+  +|+....|++.+++.|-+.+.
T Consensus       220 ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID-----~vs~eevdrlAr~PnsvV--iSC~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  220 REDCTVDDFIDVIEGNRVYIKCLYVYNKID-----QVSIEEVDRLARQPNSVV--ISCNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             ecCCChHHHHHHHhccceEEEEEEEeeccc-----eecHHHHHHHhcCCCcEE--EEeccccCHHHHHHHHHHHhc
Confidence                               33444555555     355666666666655444  466778889999888877653

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=99.12  E-value=1.2e-10  Score=88.40  Aligned_cols=151  Identities=16%  Similarity=0.153  Sum_probs=99.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh---------hhhchhhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER---------FRSLIPSYI   79 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~   79 (208)
                      -.-|.+||-.|+|||||+++|+.........-+.+.+..........+. .+.+.||.|.-.         |..... .+
T Consensus       178 ~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~-~vlltDTvGFisdLP~~LvaAF~ATLe-eV  255 (410)
T KOG0410|consen  178 SPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGN-FVLLTDTVGFISDLPIQLVAAFQATLE-EV  255 (410)
T ss_pred             CceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCc-EEEEeechhhhhhCcHHHHHHHHHHHH-HH
Confidence            3568999999999999999999655444444444455544444444432 588899999332         333222 36


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc----EEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCC
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI----IVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKA  155 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p----iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  155 (208)
                      ..+|.++.|.|++.|+.-.+...-+..+....-+..|    ++=|-||+|..+....  .+      .++  .+.+|+.+
T Consensus       256 aeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e--~E------~n~--~v~isalt  325 (410)
T KOG0410|consen  256 AEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVE--EE------KNL--DVGISALT  325 (410)
T ss_pred             hhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCc--cc------cCC--cccccccc
Confidence            7899999999999997655555545545443322233    4556788886443221  11      112  57789999


Q ss_pred             CCChHHHHHHHHHHcC
Q 028507          156 GFNIKPLFRKIAAALP  171 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~  171 (208)
                      |+|+.++.+.+-..+.
T Consensus       326 gdgl~el~~a~~~kv~  341 (410)
T KOG0410|consen  326 GDGLEELLKAEETKVA  341 (410)
T ss_pred             CccHHHHHHHHHHHhh
Confidence            9999999988877664

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.09  E-value=2.8e-09  Score=82.51  Aligned_cols=137  Identities=14%  Similarity=0.216  Sum_probs=87.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCC----------CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh------
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNT----------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR------   72 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------   72 (208)
                      .++|+++|++|.|||||+|.|++......          ..++..+......+.-++-.+.++++||||.-++-      
T Consensus        23 ~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~w  102 (373)
T COG5019          23 DFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCW  102 (373)
T ss_pred             ceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccH
Confidence            58999999999999999999997643221          23445555666666667878899999999932210      


Q ss_pred             --------hchhhh--------------ccCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           73 --------SLIPSY--------------IRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        73 --------~~~~~~--------------~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                              .....+              =.++|++++.+..+.. ++..+ .+.+..+..    .+-+|.|+-|.|....
T Consensus       103 e~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh-~l~~~DIe~Mk~ls~----~vNlIPVI~KaD~lT~  177 (373)
T COG5019         103 EPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGH-GLKPLDIEAMKRLSK----RVNLIPVIAKADTLTD  177 (373)
T ss_pred             HHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCC-CCCHHHHHHHHHHhc----ccCeeeeeeccccCCH
Confidence                    001111              1257788888876642 22222 223333433    3778999999998754


Q ss_pred             cCC--CHHHHHHHHHhcCCeEEE
Q 028507          130 RQV--SIEEGEAKSRELNVMFIE  150 (208)
Q Consensus       130 ~~~--~~~~~~~~~~~~~~~~~~  150 (208)
                      .++  ....+.+....+++++|.
T Consensus       178 ~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         178 DELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             HHHHHHHHHHHHHHHHhCCceeC
Confidence            432  234455566677887774

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.07  E-value=9.1e-10  Score=90.66  Aligned_cols=116  Identities=21%  Similarity=0.228  Sum_probs=79.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCC-----------------CCccceeeEEEEE---EECCEEEEEEEEEcCC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTY-----------------QATIGIDFLSKTM---YLEDRTVRLQLWDTAG   67 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~-----------------~~~~~~~~~~~~~---~~~~~~~~~~i~D~~G   67 (208)
                      .-.+++++|+-++|||+|+..|..+..+.-.                 .+..++......+   ..+++.+-++++||||
T Consensus       127 ~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTPG  206 (971)
T KOG0468|consen  127 RIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTPG  206 (971)
T ss_pred             eEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCCC
Confidence            4578999999999999999998754332110                 0111111111121   2356778899999999


Q ss_pred             chhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           68 QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        68 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      |-.|.......++.+|++++|+|+.+.=.+.. .+.+.   .......|+++|+||+|+.
T Consensus       207 HVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-Er~ik---haiq~~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  207 HVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-ERIIK---HAIQNRLPIVVVINKVDRL  262 (971)
T ss_pred             cccchHHHHHHhhhcceEEEEEEcccCceeeH-HHHHH---HHHhccCcEEEEEehhHHH
Confidence            99999988888999999999999985433322 22222   2223569999999999974

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=99.05  E-value=2.3e-09  Score=78.30  Aligned_cols=145  Identities=13%  Similarity=0.188  Sum_probs=85.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCC---------CCCCccceeeEEEEEEECCEEEEEEEEEcCCchh---------
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDN---------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER---------   70 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------   70 (208)
                      +++|+|||.+|.|||||+|+|...+...         ....|+.+......+.-++...+++++||||..+         
T Consensus        46 ~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncWe  125 (336)
T KOG1547|consen   46 DFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCWE  125 (336)
T ss_pred             ceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchhH
Confidence            5899999999999999999998544321         1112333333344455567778999999999322         


Q ss_pred             ---------hhh--------chhhhccC--CcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCc--
Q 028507           71 ---------FRS--------LIPSYIRD--SSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVE--  128 (208)
Q Consensus        71 ---------~~~--------~~~~~~~~--~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~--  128 (208)
                               |..        .....+..  +|..++.+..+.. ++..+ .++++.+...    +.++-|+-|.|-..  
T Consensus       126 PI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGh-sLrplDieflkrLt~v----vNvvPVIakaDtlTle  200 (336)
T KOG1547|consen  126 PIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGH-SLRPLDIEFLKRLTEV----VNVVPVIAKADTLTLE  200 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCC-ccCcccHHHHHHHhhh----heeeeeEeecccccHH
Confidence                     111        11122333  4555555555532 22222 2233333332    56788889999643  


Q ss_pred             ccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507          129 KRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      ++....++++.....+++.+++--+.+-..
T Consensus       201 Er~~FkqrI~~el~~~~i~vYPq~~fded~  230 (336)
T KOG1547|consen  201 ERSAFKQRIRKELEKHGIDVYPQDSFDEDL  230 (336)
T ss_pred             HHHHHHHHHHHHHHhcCcccccccccccch
Confidence            333344556666677888877776655443

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.03  E-value=8.9e-10  Score=83.98  Aligned_cols=55  Identities=22%  Similarity=0.269  Sum_probs=39.8

Q ss_pred             CcEEEEEeCCCCCcccCCCHHHHHHHHHhc--CCeEEEeecCCCCChHHHHHHHHHH
Q 028507          115 VIIVLVGNKTDLVEKRQVSIEEGEAKSREL--NVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       115 ~piivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      ..-++|+||+|+.+......++.....+..  +.+++.+|+++|+|++++.+||...
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            445888899999753322333444444433  4699999999999999999999774

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=99.00  E-value=3e-09  Score=81.37  Aligned_cols=162  Identities=20%  Similarity=0.200  Sum_probs=107.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc----------CcCC----CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY----------DKFD----NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~----------~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      .++++|.-+|+...|||||-.+++.          .+|.    ...+...+++.....+.+......+-=.|+|||.+|-
T Consensus        52 KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADYI  131 (449)
T KOG0460|consen   52 KPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADYI  131 (449)
T ss_pred             CCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHHH
Confidence            4689999999999999999887651          1111    1122334555556666665555667889999999998


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCccc---CCCHHHHHHHHHhcCC--
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKR---QVSIEEGEAKSRELNV--  146 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~---~~~~~~~~~~~~~~~~--  146 (208)
                      .....-..+.|+.|+|+.++|.... +..+ ...+.+-.+  ++ +++.+||.|+.++.   ++-..++++...++|+  
T Consensus       132 KNMItGaaqMDGaILVVaatDG~MP-QTrE-HlLLArQVG--V~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~G  207 (449)
T KOG0460|consen  132 KNMITGAAQMDGAILVVAATDGPMP-QTRE-HLLLARQVG--VKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDG  207 (449)
T ss_pred             HHhhcCccccCceEEEEEcCCCCCc-chHH-HHHHHHHcC--CceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCC
Confidence            8887778899999999999974322 2222 222333222  44 67778999998543   2335667777778764  


Q ss_pred             ---eEEEeecC---CCCC-------hHHHHHHHHHHcCC
Q 028507          147 ---MFIETSAK---AGFN-------IKPLFRKIAAALPG  172 (208)
Q Consensus       147 ---~~~~~sa~---~~~~-------i~~~~~~l~~~~~~  172 (208)
                         |++.-||.   +|.+       |.++++.+...++.
T Consensus       208 d~~PvI~GSAL~ALeg~~peig~~aI~kLldavDsyip~  246 (449)
T KOG0460|consen  208 DNTPVIRGSALCALEGRQPEIGLEAIEKLLDAVDSYIPT  246 (449)
T ss_pred             CCCCeeecchhhhhcCCCccccHHHHHHHHHHHhccCCC
Confidence               78887765   4432       55666666665553

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.00  E-value=1.1e-08  Score=79.72  Aligned_cols=143  Identities=15%  Similarity=0.236  Sum_probs=88.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCC---------CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh--------
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDN---------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF--------   71 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------   71 (208)
                      .+.++++|.+|.|||||+|.|+...+..         ....+..+......+.-++-.++++++||||..+.        
T Consensus        21 ~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~  100 (366)
T KOG2655|consen   21 DFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWR  100 (366)
T ss_pred             ceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccch
Confidence            4899999999999999999988654322         12224444555555666777889999999993221        


Q ss_pred             ----------h-------hchhhhcc--CCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           72 ----------R-------SLIPSYIR--DSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        72 ----------~-------~~~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                                .       .+.+..+.  .+|+.++.+..+.. ++..+ ..++..+.    ..+.+|.|+-|.|.....+
T Consensus       101 pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~Di~~Mk~l~----~~vNiIPVI~KaD~lT~~E  175 (366)
T KOG2655|consen  101 PIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLDIEFMKKLS----KKVNLIPVIAKADTLTKDE  175 (366)
T ss_pred             hhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhhHHHHHHHh----ccccccceeeccccCCHHH
Confidence                      1       11111233  67788888876642 22222 12223332    3478899999999866543


Q ss_pred             C--CHHHHHHHHHhcCCeEEEeecCCC
Q 028507          132 V--SIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus       132 ~--~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      +  ....+...+...++++|....-..
T Consensus       176 l~~~K~~I~~~i~~~nI~vf~fp~~~~  202 (366)
T KOG2655|consen  176 LNQFKKRIRQDIEEHNIKVFDFPTDES  202 (366)
T ss_pred             HHHHHHHHHHHHHHcCcceecCCCCcc
Confidence            2  234455556677787776664443

>cd01855 YqeH YqeH

Probab=98.99  E-value=4e-09  Score=76.70  Aligned_cols=94  Identities=26%  Similarity=0.314  Sum_probs=66.1

Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcC
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELN  145 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~  145 (208)
                      +..++..++.++|++++|+|++++..     .|...+... ..+.|+++|+||+|+..... .......+.     ...+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~-~~~~~~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLF-GGNNPVILVGNKIDLLPKDK-NLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHh-cCCCcEEEEEEchhcCCCCC-CHHHHHHHHHHHHHhhcC
Confidence            56778888999999999999987542     122222212 24589999999999865433 233333333     2233


Q ss_pred             C---eEEEeecCCCCChHHHHHHHHHHcC
Q 028507          146 V---MFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       146 ~---~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      .   .++.+||+++.|++++++.|.+.++
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3   6899999999999999999998764

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.

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.99  E-value=6.4e-09  Score=80.99  Aligned_cols=123  Identities=16%  Similarity=0.248  Sum_probs=82.8

Q ss_pred             EEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHH-------HHHHHHHHHHhcC----CCC
Q 028507           47 LSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-------TSKWIDEVRTERG----SDV  115 (208)
Q Consensus        47 ~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-------~~~~~~~i~~~~~----~~~  115 (208)
                      ....+.+.+  ..+.++|.+|+...+.-|..++.+++++|||+++++.+....       +.+-+..+...+.    .+.
T Consensus       186 ~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~t  263 (354)
T KOG0082|consen  186 VEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANT  263 (354)
T ss_pred             eEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccC
Confidence            334444444  679999999999988899999999999999999986543222       2222222222222    568


Q ss_pred             cEEEEEeCCCCCccc--------------C-CCHHHHHHHHHh----------cCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          116 IIVLVGNKTDLVEKR--------------Q-VSIEEGEAKSRE----------LNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       116 piivv~nK~D~~~~~--------------~-~~~~~~~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++|++.||.|+-++.              . -..+++..+...          ..+....+.|.+..+++.+|..+.+.+
T Consensus       264 siiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~I  343 (354)
T KOG0082|consen  264 SIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTI  343 (354)
T ss_pred             cEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHH
Confidence            899999999996531              1 122333333221          134567778999999999999888876


Q ss_pred             C
Q 028507          171 P  171 (208)
Q Consensus       171 ~  171 (208)
                      -
T Consensus       344 i  344 (354)
T KOG0082|consen  344 I  344 (354)
T ss_pred             H
Confidence            4

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.97  E-value=5e-09  Score=81.35  Aligned_cols=165  Identities=16%  Similarity=0.219  Sum_probs=96.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCC------------------CCCccceee-----EEEEEEE---------
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNT------------------YQATIGIDF-----LSKTMYL---------   53 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~------------------~~~~~~~~~-----~~~~~~~---------   53 (208)
                      +.-+.++++||+..+|||||+-.|+.+..+..                  .....+.+.     ....+..         
T Consensus       130 DF~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~Ld  209 (641)
T KOG0463|consen  130 DFIEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLD  209 (641)
T ss_pred             cceeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCccc
Confidence            45689999999999999999988775433211                  111111111     1111111         


Q ss_pred             -----CCEEEEEEEEEcCCchhhhhchhhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           54 -----EDRTVRLQLWDTAGQERFRSLIPSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        54 -----~~~~~~~~i~D~~G~~~~~~~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                           .+..-.++|+|.+|+++|....-..  -...|.-.+++-++  ..+--+......+..  ..++|+++|.+|+|+
T Consensus       210 WvkIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaN--aGIiGmTKEHLgLAL--aL~VPVfvVVTKIDM  285 (641)
T KOG0463|consen  210 WVKICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGAN--AGIIGMTKEHLGLAL--ALHVPVFVVVTKIDM  285 (641)
T ss_pred             ceeeccccceeEEEEeccchhhhhheeeeccccCCCCceEEEeccc--ccceeccHHhhhhhh--hhcCcEEEEEEeecc
Confidence                 1112248999999999987644332  23467777777766  222222222222222  245999999999999


Q ss_pred             CcccCCCHHHHHHHHH-----------------------------hcCCeEEEeecCCCCChHHHHHHHHHHcCCCccc
Q 028507          127 VEKRQVSIEEGEAKSR-----------------------------ELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL  176 (208)
Q Consensus       127 ~~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  176 (208)
                      +.+..+.+ -.+.+.+                             +.-+++|.+|..+|.|+ +++..+...++-....
T Consensus       286 CPANiLqE-tmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL-~LLkmFLNlls~R~~~  362 (641)
T KOG0463|consen  286 CPANILQE-TMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNL-PLLKMFLNLLSLRRQL  362 (641)
T ss_pred             CcHHHHHH-HHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCCh-HHHHHHHhhcCccccc
Confidence            87653321 1111111                             11258999999999998 4566666666544333

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.93  E-value=8e-09  Score=80.12  Aligned_cols=171  Identities=18%  Similarity=0.263  Sum_probs=101.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCC----------------c-------cceeeEEEEEEECC--------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA----------------T-------IGIDFLSKTMYLED--------   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~----------------~-------~~~~~~~~~~~~~~--------   55 (208)
                      .-+++++++|.-.+|||||+-.|+.+..+.....                +       .+.+-..+.+.+..        
T Consensus       165 fievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~  244 (591)
T KOG1143|consen  165 FIEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIV  244 (591)
T ss_pred             ceEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHH
Confidence            4579999999999999999998886544321111                1       11122222222211        


Q ss_pred             --EEEEEEEEEcCCchhhhhchhhhcc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           56 --RTVRLQLWDTAGQERFRSLIPSYIR--DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        56 --~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                        ..--++++|.+|+.+|....-..+.  ..|..++|++++..-.+.  .+....+...  .++|.+++++|+|+.+...
T Consensus       245 e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~t--TrEHLgl~~A--L~iPfFvlvtK~Dl~~~~~  320 (591)
T KOG1143|consen  245 EKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWT--TREHLGLIAA--LNIPFFVLVTKMDLVDRQG  320 (591)
T ss_pred             hhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccc--cHHHHHHHHH--hCCCeEEEEEeeccccchh
Confidence              1124899999999999876554443  467888888887432222  2222223222  3599999999999976421


Q ss_pred             ------------------------CCHHHHHHHHHhc---C-CeEEEeecCCCCChHHHHHHHHHHcCCCccccccccc
Q 028507          132 ------------------------VSIEEGEAKSREL---N-VMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQE  182 (208)
Q Consensus       132 ------------------------~~~~~~~~~~~~~---~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~  182 (208)
                                              .+.+++...+.+.   + .++|.+|+.+|++++- +..+..-++..-...+..++
T Consensus       321 ~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~l-l~~fLn~Lsp~~~~~e~~~L  398 (591)
T KOG1143|consen  321 LKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRL-LRTFLNCLSPAGTAEERIQL  398 (591)
T ss_pred             HHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhH-HHHHHhhcCCcCChHHHHHH
Confidence                                    1223333333322   2 3899999999999854 44444545444333333333

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.93  E-value=3.1e-08  Score=77.14  Aligned_cols=163  Identities=18%  Similarity=0.220  Sum_probs=99.5

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCc--------------cceeeEEEEEEECCE---------------
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQAT--------------IGIDFLSKTMYLEDR---------------   56 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~---------------   56 (208)
                      ...++.+.+.|+.+.|||||+-.|..+..+.....+              .+-+.....+-++++               
T Consensus       114 ~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~  193 (527)
T COG5258         114 APEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKA  193 (527)
T ss_pred             CCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHh
Confidence            456799999999999999999999876653322211              111222222222211               


Q ss_pred             ------EEEEEEEEcCCchhhhhch-hh-hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           57 ------TVRLQLWDTAGQERFRSLI-PS-YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        57 ------~~~~~i~D~~G~~~~~~~~-~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                            .--+.|+|+.||+.|-... +. +-...|..++++.+++.  ...+.....-+...  ...|+|++.+|+|+..
T Consensus       194 ~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG--~~~~tkEHLgi~~a--~~lPviVvvTK~D~~~  269 (527)
T COG5258         194 AVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDG--VTKMTKEHLGIALA--MELPVIVVVTKIDMVP  269 (527)
T ss_pred             HhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCC--cchhhhHhhhhhhh--hcCCEEEEEEecccCc
Confidence                  1248899999999875533 33 33578999999999853  34444434444433  3499999999999975


Q ss_pred             ccCCC--HHHHH----------------------HHHHhcC---CeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          129 KRQVS--IEEGE----------------------AKSRELN---VMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       129 ~~~~~--~~~~~----------------------~~~~~~~---~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ...+.  .+++.                      ..+.+.+   .|++.+|+.+|+|++ ++..+...++..
T Consensus       270 ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~Gld-lL~e~f~~Lp~r  340 (527)
T COG5258         270 DDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLD-LLDEFFLLLPKR  340 (527)
T ss_pred             HHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHH-HHHHHHHhCCcc
Confidence            42111  01111                      1111112   389999999999985 445555555544

>PRK12289 GTPase RsgA; Reviewed

Probab=98.93  E-value=6.2e-09  Score=82.15  Aligned_cols=95  Identities=16%  Similarity=0.253  Sum_probs=69.2

Q ss_pred             hhhchhhhccCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEE
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFI  149 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  149 (208)
                      ...+.+..+.++|.+++|+|+.++. ....+..|+..+..   .++|+++|+||+|+......  .........+++.++
T Consensus        79 ~~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~  153 (352)
T PRK12289         79 KTELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPL  153 (352)
T ss_pred             ccceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEE
Confidence            3445556689999999999998775 44456777665532   45999999999999643221  222233346788999


Q ss_pred             EeecCCCCChHHHHHHHHHHc
Q 028507          150 ETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      .+|++++.|++++++.|...+
T Consensus       154 ~iSA~tg~GI~eL~~~L~~ki  174 (352)
T PRK12289        154 FISVETGIGLEALLEQLRNKI  174 (352)
T ss_pred             EEEcCCCCCHHHHhhhhccce
Confidence            999999999999999887543

>cd01859 MJ1464 MJ1464

Probab=98.92  E-value=3.7e-09  Score=74.38  Aligned_cols=94  Identities=24%  Similarity=0.226  Sum_probs=63.8

Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEe
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIET  151 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (208)
                      +.+.+..++++|++|+|+|++++..... ..+...+.   ..+.|+++|+||+|+.+....  .+...+....+.+++.+
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~i   76 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVYV   76 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEEE
Confidence            4456667788999999999987643222 11222121   135899999999998543221  11112333456789999


Q ss_pred             ecCCCCChHHHHHHHHHHcC
Q 028507          152 SAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~~  171 (208)
                      |++++.|++++++.+.+.++
T Consensus        77 Sa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          77 SAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             EccccccHHHHHHHHHHHHh
Confidence            99999999999999998775

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.90  E-value=2.8e-08  Score=80.93  Aligned_cols=140  Identities=12%  Similarity=0.169  Sum_probs=84.4

Q ss_pred             CCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCC-CCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            2 APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTY-QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         2 ~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      .|...++.+=++||||||.|||||++.|+..-..... ....+++      .+.++..++++..+|  .+...++. ..+
T Consensus        62 tp~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiT------vvsgK~RRiTflEcp--~Dl~~miD-vaK  132 (1077)
T COG5192          62 TPKDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPIT------VVSGKTRRITFLECP--SDLHQMID-VAK  132 (1077)
T ss_pred             CcccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceE------EeecceeEEEEEeCh--HHHHHHHh-HHH
Confidence            3445567788889999999999999988754321111 1111111      245666789999999  44445444 347


Q ss_pred             CCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCCCHHHHHHHHHh------cCCeEEEee
Q 028507           81 DSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQVSIEEGEAKSRE------LNVMFIETS  152 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~~~~~~~~~~~~------~~~~~~~~s  152 (208)
                      -+|.+++++|.+  ..|+. ..++++.+. ..  ++| ++-|+++.|+............++.+.      -|+.+|++|
T Consensus       133 IaDLVlLlIdgn--fGfEMETmEFLnil~-~H--GmPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFyls  207 (1077)
T COG5192         133 IADLVLLLIDGN--FGFEMETMEFLNILI-SH--GMPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLS  207 (1077)
T ss_pred             hhheeEEEeccc--cCceehHHHHHHHHh-hc--CCCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEec
Confidence            789999999998  34443 233344333 33  356 666779999865332212222222211      167888888


Q ss_pred             cCC
Q 028507          153 AKA  155 (208)
Q Consensus       153 a~~  155 (208)
                      ...
T Consensus       208 gV~  210 (1077)
T COG5192         208 GVE  210 (1077)
T ss_pred             ccc
Confidence            654

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=98.90  E-value=4.5e-09  Score=78.21  Aligned_cols=152  Identities=16%  Similarity=0.157  Sum_probs=84.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC------cC-----CCCCCCc---------------cceeeEEEEEEECC------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD------KF-----DNTYQAT---------------IGIDFLSKTMYLED------   55 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~------~~-----~~~~~~~---------------~~~~~~~~~~~~~~------   55 (208)
                      +.+.|.|.|+||+|||||++.|...      ++     +++...+               .....+.....-.+      
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            4589999999999999999988621      11     1111100               00112222222211      


Q ss_pred             ------------EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 028507           56 ------------RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNK  123 (208)
Q Consensus        56 ------------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK  123 (208)
                                  -.+.+.|+.|.|--...   -....-+|.+++|.-..-.+....++.-+-++..        ++|+||
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE---~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEiaD--------i~vVNK  176 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKAGIMEIAD--------IFVVNK  176 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH-S--------EEEEE-
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhhhhhhhcc--------EEEEeC
Confidence                        11458888887732211   1235678999999887655555544444444432        778899


Q ss_pred             CCCCcccCCCHHHHHHHHHh-------cCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          124 TDLVEKRQVSIEEGEAKSRE-------LNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       124 ~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      .|...... ...+.+.....       +..+++.+||.++.|++++++.|.++..
T Consensus       177 aD~~gA~~-~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  177 ADRPGADR-TVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             -SHHHHHH-HHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             CChHHHHH-HHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            99543322 12222222221       1248999999999999999999988654

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.

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.89  E-value=1.9e-08  Score=73.65  Aligned_cols=159  Identities=17%  Similarity=0.181  Sum_probs=94.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh---chhhhccCCcEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS---LIPSYIRDSSVA   85 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~~   85 (208)
                      +.+|+++|...+|||++-.....+..+.+.-.... +-......+.+.-+.+.+||.||+-.+-.   -....++++.++
T Consensus        27 kp~ilLMG~rRsGKsSI~KVVFhkMsPneTlflES-Tski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gAL  105 (347)
T KOG3887|consen   27 KPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLES-TSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGAL  105 (347)
T ss_pred             CceEEEEeecccCcchhhheeeeccCCCceeEeec-cCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeE
Confidence            36699999999999998766655443322111000 00001111222346799999999775432   234458899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCccc-CC-C----HHHHHHHHHhcC-----CeEEEee
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKR-QV-S----IEEGEAKSRELN-----VMFIETS  152 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~-~~-~----~~~~~~~~~~~~-----~~~~~~s  152 (208)
                      |+|+|+.+ +-.+.+..+...+.+.+.  +++.+-+.+.|.|-..+. .+ .    ..+........|     +.++.+|
T Consensus       106 ifvIDaQd-dy~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LTS  184 (347)
T KOG3887|consen  106 IFVIDAQD-DYMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLTS  184 (347)
T ss_pred             EEEEechH-HHHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEee
Confidence            99999975 345556666666666554  778888888999975431 11 1    111112222222     3556666


Q ss_pred             cCCCCChHHHHHHHHHHc
Q 028507          153 AKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~  170 (208)
                      ..+ ..+-+.|..+.+.+
T Consensus       185 IyD-HSIfEAFSkvVQkL  201 (347)
T KOG3887|consen  185 IYD-HSIFEAFSKVVQKL  201 (347)
T ss_pred             ecc-hHHHHHHHHHHHHH
Confidence            554 46777777666544

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.88  E-value=1.2e-08  Score=78.78  Aligned_cols=86  Identities=16%  Similarity=0.166  Sum_probs=66.9

Q ss_pred             hccCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC
Q 028507           78 YIRDSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      .+.++|.+++|+|++++. ++..+..|+..+..   .++|+++|+||+|+.+...  ...........+++++.+|++++
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~~g  149 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAKTG  149 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECCCC
Confidence            378999999999999887 77888888876654   3489999999999965421  11223333456889999999999


Q ss_pred             CChHHHHHHHHH
Q 028507          157 FNIKPLFRKIAA  168 (208)
Q Consensus       157 ~~i~~~~~~l~~  168 (208)
                      .|+++++..|..
T Consensus       150 ~gi~~L~~~L~~  161 (287)
T cd01854         150 EGLDELREYLKG  161 (287)
T ss_pred             ccHHHHHhhhcc
Confidence            999999988875

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.84  E-value=1.5e-08  Score=78.67  Aligned_cols=87  Identities=21%  Similarity=0.223  Sum_probs=64.9

Q ss_pred             ccCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF  157 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  157 (208)
                      +.++|.+++|+|+++|+.... +..|+..+..   .++|+++|+||+|+.+... ...+........+++++++|++++.
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g~  153 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEGE  153 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCCc
Confidence            589999999999988765544 4666666543   3589999999999963322 1223344455678899999999999


Q ss_pred             ChHHHHHHHHHH
Q 028507          158 NIKPLFRKIAAA  169 (208)
Q Consensus       158 ~i~~~~~~l~~~  169 (208)
                      |++++++.+...
T Consensus       154 gi~~L~~~l~gk  165 (298)
T PRK00098        154 GLDELKPLLAGK  165 (298)
T ss_pred             cHHHHHhhccCc
Confidence            999999988654

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

Probab=98.84  E-value=4.2e-08  Score=74.22  Aligned_cols=104  Identities=19%  Similarity=0.126  Sum_probs=63.3

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEG  137 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~  137 (208)
                      +.+.|+.|.|--...   -.....+|.+++|.=..-.+....++.-+-++..        ++|+||.|..... ....+.
T Consensus       144 ~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEiaD--------i~vINKaD~~~A~-~a~r~l  211 (323)
T COG1703         144 YDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKAGIMEIAD--------IIVINKADRKGAE-KAAREL  211 (323)
T ss_pred             CCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHhhhhhhhh--------eeeEeccChhhHH-HHHHHH
Confidence            458888888733222   1234567888888765544444544444444433        7788999954321 111111


Q ss_pred             HHH-------HHhcC--CeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          138 EAK-------SRELN--VMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       138 ~~~-------~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ...       -.+.+  -+++.+||..|+|++++++.+.++....
T Consensus       212 ~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~  256 (323)
T COG1703         212 RSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFL  256 (323)
T ss_pred             HHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHH
Confidence            111       11223  3899999999999999999998877533

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.83  E-value=9.7e-09  Score=71.03  Aligned_cols=54  Identities=28%  Similarity=0.362  Sum_probs=37.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      +++++|.+|+|||||+|+|.+...... ....+.+.....+.+++   .+.||||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~-~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSV-SATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceee-CCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            899999999999999999998775321 11222233334444443   4799999995

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.83  E-value=3.1e-08  Score=78.23  Aligned_cols=89  Identities=17%  Similarity=0.193  Sum_probs=67.4

Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC-CHHHHHHHHHhcCCeEEEeecCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV-SIEEGEAKSRELNVMFIETSAKAGF  157 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~sa~~~~  157 (208)
                      ..++|.+++|++.+...++..+..|+..+..   .++|+++|+||+|+.+.... ...+........+++++++||+++.
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~  194 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGE  194 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCc
Confidence            4679999999999877788889998775532   35899999999999754321 1122223334568899999999999


Q ss_pred             ChHHHHHHHHHHc
Q 028507          158 NIKPLFRKIAAAL  170 (208)
Q Consensus       158 ~i~~~~~~l~~~~  170 (208)
                      |++++++.|...+
T Consensus       195 GideL~~~L~~ki  207 (347)
T PRK12288        195 GLEELEAALTGRI  207 (347)
T ss_pred             CHHHHHHHHhhCC
Confidence            9999999997644

>TIGR00092 GTP-binding protein YchF

Probab=98.82  E-value=4.4e-08  Score=77.29  Aligned_cols=83  Identities=14%  Similarity=0.077  Sum_probs=61.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEE---------------EEEEEEEcCCchh---
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRT---------------VRLQLWDTAGQER---   70 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~---   70 (208)
                      +++.|+|.|++|||||++.|+.... .....|.++++.....+.+.+..               ..+.+.|.||...   
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7999999999999999999998876 55555666555555555554421               3588999999543   


Q ss_pred             ----hhhchhhhccCCcEEEEEEeCC
Q 028507           71 ----FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        71 ----~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                          ........++.+|++++|+++.
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                2224445688999999999985

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.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.80  E-value=2.8e-08  Score=77.04  Aligned_cols=121  Identities=21%  Similarity=0.280  Sum_probs=78.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCC-CccceeeEEEEEEECCE------------------------------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQ-ATIGIDFLSKTMYLEDR------------------------------   56 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~------------------------------   56 (208)
                      .+.-|+++|+-..||||||+.|+.+.++.... +..+.+.+...++.+..                              
T Consensus        57 ~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf  136 (532)
T KOG1954|consen   57 AKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRF  136 (532)
T ss_pred             cCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHH
Confidence            46789999999999999999999988864322 22222333333322110                              


Q ss_pred             ---------EEEEEEEEcCCch-----------hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q 028507           57 ---------TVRLQLWDTAGQE-----------RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI  116 (208)
Q Consensus        57 ---------~~~~~i~D~~G~~-----------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p  116 (208)
                               .-.++|+||||.-           .|......++..+|.++++||...-+--++..+.+..+   .+..-.
T Consensus       137 ~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aL---kG~Edk  213 (532)
T KOG1954|consen  137 MCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDAL---KGHEDK  213 (532)
T ss_pred             HHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHh---hCCcce
Confidence                     0139999999933           24556677889999999999986443333344444444   333445


Q ss_pred             EEEEEeCCCCCcccC
Q 028507          117 IVLVGNKTDLVEKRQ  131 (208)
Q Consensus       117 iivv~nK~D~~~~~~  131 (208)
                      +=||.||.|+.+..+
T Consensus       214 iRVVLNKADqVdtqq  228 (532)
T KOG1954|consen  214 IRVVLNKADQVDTQQ  228 (532)
T ss_pred             eEEEeccccccCHHH
Confidence            666779999876544

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.79  E-value=1.7e-07  Score=77.85  Aligned_cols=146  Identities=21%  Similarity=0.273  Sum_probs=86.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccce-----------------------------------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGI-----------------------------------------   44 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~-----------------------------------------   44 (208)
                      ...+||+|.|..++||||++|+++..+..+ ...+++..                                         
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            457899999999999999999998665422 22221110                                         


Q ss_pred             --eeEEEEEEECCE----EEEEEEEEcCCch---hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q 028507           45 --DFLSKTMYLEDR----TVRLQLWDTAGQE---RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDV  115 (208)
Q Consensus        45 --~~~~~~~~~~~~----~~~~~i~D~~G~~---~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~  115 (208)
                        .-....++.++.    .-.+.++|.||.+   ...+-...+...+|++|+|.++.+..+... ..++.....   ...
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~---~Kp  262 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSE---EKP  262 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhc---cCC
Confidence              000011111110    0137888999955   345556667889999999999976544333 233333322   235


Q ss_pred             cEEEEEeCCCCCcccCCCHHHHHHHHHhcC--------CeEEEeecCCC
Q 028507          116 IIVLVGNKTDLVEKRQVSIEEGEAKSRELN--------VMFIETSAKAG  156 (208)
Q Consensus       116 piivv~nK~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~sa~~~  156 (208)
                      .|+|+.||+|.....+.-.+.+....+++.        =.++.||++..
T Consensus       263 niFIlnnkwDasase~ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~e~  311 (749)
T KOG0448|consen  263 NIFILNNKWDASASEPECKEDVLKQIHELSVVTEKEAADRVFFVSAKEV  311 (749)
T ss_pred             cEEEEechhhhhcccHHHHHHHHHHHHhcCcccHhhhcCeeEEEeccch
Confidence            577888999986554433444444433332        15788886654

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.76  E-value=5.3e-08  Score=77.56  Aligned_cols=95  Identities=32%  Similarity=0.425  Sum_probs=69.6

Q ss_pred             chhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHH----HHHh
Q 028507           68 QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEA----KSRE  143 (208)
Q Consensus        68 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~----~~~~  143 (208)
                      .++|..+...+.+.++++++|+|+.+..     ..|...+....+ +.|+++|+||+|+.+.. ...++...    ++..
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~-~~piilV~NK~DLl~k~-~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVG-GNPVLLVGNKIDLLPKS-VNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhC-CCCEEEEEEchhhCCCC-CCHHHHHHHHHHHHHH
Confidence            4578888888889999999999997643     234444444432 58999999999997533 33334333    3556


Q ss_pred             cCC---eEEEeecCCCCChHHHHHHHHHH
Q 028507          144 LNV---MFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       144 ~~~---~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      .++   .++.+||+++.|++++++.|.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            676   48999999999999999999765

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.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.76  E-value=5.7e-09  Score=79.86  Aligned_cols=85  Identities=20%  Similarity=0.198  Sum_probs=66.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCE---------------EEEEEEEEcCCchh--
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR---------------TVRLQLWDTAGQER--   70 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~--   70 (208)
                      .++++.|||.|++|||||+|.|+.........|..+++.....+.+...               ...++++|++|.-.  
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            5789999999999999999999988887777888888877776655431               23599999998443  


Q ss_pred             -----hhhchhhhccCCcEEEEEEeCC
Q 028507           71 -----FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        71 -----~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                           +..-....++.+|+++.|+++.
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEec
Confidence                 2333445588999999999875

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.76  E-value=2.7e-08  Score=74.30  Aligned_cols=155  Identities=17%  Similarity=0.131  Sum_probs=90.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCC-ccceeeEEEEEEECCEEEEEEEEEcCC----------chhhhhch
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA-TIGIDFLSKTMYLEDRTVRLQLWDTAG----------QERFRSLI   75 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~   75 (208)
                      .+..++++.|.+++|||+|+|-++..+....... ..+.+.....+.+..   .+.++|.||          ..++..+.
T Consensus       134 ~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~~---~~~~vDlPG~~~a~y~~~~~~d~~~~t  210 (320)
T KOG2486|consen  134 DKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVGK---SWYEVDLPGYGRAGYGFELPADWDKFT  210 (320)
T ss_pred             CCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeeccc---eEEEEecCCcccccCCccCcchHhHhH
Confidence            4568999999999999999999987665333222 444444445555443   588999999          22344455


Q ss_pred             hhhccCCc---EEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC------CC-----HHHHHHH
Q 028507           76 PSYIRDSS---VAVVVYDVASR-QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ------VS-----IEEGEAK  140 (208)
Q Consensus        76 ~~~~~~~d---~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~------~~-----~~~~~~~  140 (208)
                      ..++.+-+   -+++++|++-+ ...+.     ..+.-....++|+.+|+||+|......      ..     .....+.
T Consensus       211 ~~Y~leR~nLv~~FLLvd~sv~i~~~D~-----~~i~~~ge~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~  285 (320)
T KOG2486|consen  211 KSYLLERENLVRVFLLVDASVPIQPTDN-----PEIAWLGENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRG  285 (320)
T ss_pred             HHHHHhhhhhheeeeeeeccCCCCCCCh-----HHHHHHhhcCCCeEEeeehhhhhhhccccccCccccceeehhhcccc
Confidence            55544333   33444565532 11121     111112225699999999999753211      10     1111111


Q ss_pred             HHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507          141 SRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       141 ~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      ......+.+.+|+.++.|+++++-.|.+.
T Consensus       286 ~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q~  314 (320)
T KOG2486|consen  286 VFLVDLPWIYVSSVTSLGRDLLLLHIAQL  314 (320)
T ss_pred             ceeccCCceeeecccccCceeeeeehhhh
Confidence            12223467789999999998887666543

>cd01858 NGP_1 NGP-1

Probab=98.75  E-value=3.4e-08  Score=69.60  Aligned_cols=56  Identities=25%  Similarity=0.279  Sum_probs=37.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      +.++|+++|.+|+|||||+|+|.+... .....+.+  +.....+....   .+.++||||.
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~--T~~~~~~~~~~---~~~liDtPGi  157 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGE--TKVWQYITLMK---RIYLIDCPGV  157 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCCCCe--eEeEEEEEcCC---CEEEEECcCC
Confidence            467899999999999999999997654 22233332  22233333322   3789999983

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.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.74  E-value=4.1e-08  Score=82.14  Aligned_cols=120  Identities=23%  Similarity=0.188  Sum_probs=81.8

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhcCcC------------C--CCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMYDKF------------D--NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~------------~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      ......--+|+++.+...|||||...|+...-            -  .....+.+++.....+..-.+.+.++++|+|||
T Consensus         3 ~~~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspgh   82 (887)
T KOG0467|consen    3 QKGSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGH   82 (887)
T ss_pred             CCCCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCc
Confidence            34445567899999999999999999873221            1  112223444444444444445578999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                      -+|.+......+-+|++++++|+...-.....    .-+++........++|+||+|.
T Consensus        83 vdf~sevssas~l~d~alvlvdvvegv~~qt~----~vlrq~~~~~~~~~lvinkidr  136 (887)
T KOG0467|consen   83 VDFSSEVSSASRLSDGALVLVDVVEGVCSQTY----AVLRQAWIEGLKPILVINKIDR  136 (887)
T ss_pred             cchhhhhhhhhhhcCCcEEEEeeccccchhHH----HHHHHHHHccCceEEEEehhhh
Confidence            99999999999999999999999742111221    2223222234567888999994

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.69  E-value=2.1e-08  Score=75.85  Aligned_cols=164  Identities=17%  Similarity=0.161  Sum_probs=105.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC---cCCCCCCCccceeeEEEEE---EE----------------------------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD---KFDNTYQATIGIDFLSKTM---YL----------------------------   53 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~---~~~~~~~~~~~~~~~~~~~---~~----------------------------   53 (208)
                      ..++|.-+|+.-.||||++.++.+-   +|..+.+...++..-....   +.                            
T Consensus        37 ATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~g  116 (466)
T KOG0466|consen   37 ATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRPG  116 (466)
T ss_pred             eeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccCC
Confidence            4689999999999999999988643   3333333332222111100   00                            


Q ss_pred             -CC---EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCC----hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           54 -ED---RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVAS----RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        54 -~~---~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                       .+   -...+.|+|+|||+-+-........-.|+.++++..++    |++-+.+..  -++...    ..++++-||+|
T Consensus       117 ~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaa--veiM~L----khiiilQNKiD  190 (466)
T KOG0466|consen  117 CEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAA--VEIMKL----KHIIILQNKID  190 (466)
T ss_pred             CCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHH--HHHhhh----ceEEEEechhh
Confidence             00   01258899999999776655555566788888887764    333333221  112222    56888999999


Q ss_pred             CCcccCCC--HHHHHHHHHhc---CCeEEEeecCCCCChHHHHHHHHHHcCCCcccc
Q 028507          126 LVEKRQVS--IEEGEAKSREL---NVMFIETSAKAGFNIKPLFRKIAAALPGMETLS  177 (208)
Q Consensus       126 ~~~~~~~~--~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  177 (208)
                      +..+++..  .++++.|....   +++++++||.-..|++-+.++|.+.++.-.+..
T Consensus       191 li~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvPvRdf  247 (466)
T KOG0466|consen  191 LIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVPVRDF  247 (466)
T ss_pred             hhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCCcccc
Confidence            98765432  34444454432   569999999999999999999999998654444

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.68  E-value=6.7e-08  Score=68.96  Aligned_cols=55  Identities=18%  Similarity=0.280  Sum_probs=38.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      .++++++|.||+|||||+|+|.+.+. .....+.++  .....+....   .+.++||||.
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T--~~~~~~~~~~---~~~l~DtPGi  172 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVT--KSMQEVHLDK---KVKLLDSPGI  172 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeE--cceEEEEeCC---CEEEEECcCC
Confidence            47999999999999999999998665 333334433  3333333332   4889999983

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>cd01856 YlqF YlqF

Probab=98.66  E-value=9.4e-08  Score=68.29  Aligned_cols=56  Identities=20%  Similarity=0.251  Sum_probs=39.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      ..++++++|.+|+|||||+|+|.+..+.. ...+.+  +.....+..+   ..+.+|||||.
T Consensus       114 ~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~--T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         114 RGIRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGV--TKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCceeecCCCCE--EeeeEEEEec---CCEEEEECCCC
Confidence            45799999999999999999999877632 222232  3333333333   35899999994

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.

>cd01858 NGP_1 NGP-1

Probab=98.63  E-value=1.6e-07  Score=66.14  Aligned_cols=88  Identities=18%  Similarity=0.191  Sum_probs=57.6

Q ss_pred             hccCCcEEEEEEeCCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCC
Q 028507           78 YIRDSSVAVVVYDVASRQS--FLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKA  155 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  155 (208)
                      .+..+|++++|+|+.+|..  ...+..++.   . ...++|+++|+||+|+.+.... ......+...+....+.+|++.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~~~i~~~l~---~-~~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~   79 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRCKHVEEYLK---K-EKPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINN   79 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccCHHHHHHHH---h-ccCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccc
Confidence            4678999999999998632  222333222   2 2345899999999999643321 1122222222233457899999


Q ss_pred             CCChHHHHHHHHHHc
Q 028507          156 GFNIKPLFRKIAAAL  170 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~  170 (208)
                      +.+++++++.+.+..
T Consensus        80 ~~~~~~L~~~l~~~~   94 (157)
T cd01858          80 PFGKGSLIQLLRQFS   94 (157)
T ss_pred             cccHHHHHHHHHHHH
Confidence            999999999997754

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.

>cd01855 YqeH YqeH

Probab=98.63  E-value=7.9e-08  Score=69.88  Aligned_cols=55  Identities=18%  Similarity=0.254  Sum_probs=37.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC---------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF---------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      ..+++++|.+|+|||||+|+|.....         .....+.+  +.....+....   .+.++||||.
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gt--T~~~~~~~~~~---~~~~~DtPG~  190 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGT--TLDLIKIPLGN---GKKLYDTPGI  190 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCe--eeeeEEEecCC---CCEEEeCcCC
Confidence            46899999999999999999997542         22233333  33334444432   4799999993

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.59  E-value=1.8e-07  Score=71.98  Aligned_cols=56  Identities=25%  Similarity=0.332  Sum_probs=39.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      +.++++++|.||+|||||+|+|.+.+.. ....+.+  +.....+....   .+.++||||.
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~--T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGV--TKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCccccCCCCCe--ecceEEEEeCC---CEEEEECCCc
Confidence            4689999999999999999999976642 2333333  33333444432   4799999996

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.

>cd01859 MJ1464 MJ1464

Probab=98.59  E-value=2.1e-07  Score=65.38  Aligned_cols=57  Identities=23%  Similarity=0.256  Sum_probs=38.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      ...+++++|.+|+|||||+++|.+.... ...++.+.+........+.   .+.+|||||.
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~~~DtpGi  156 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSA-STSPSPGYTKGEQLVKITS---KIYLLDTPGV  156 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcc-ccCCCCCeeeeeEEEEcCC---CEEEEECcCC
Confidence            4578999999999999999999975532 2233444333333233322   5899999983

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.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.58  E-value=7.2e-07  Score=66.24  Aligned_cols=86  Identities=17%  Similarity=0.220  Sum_probs=59.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-------hhchhhhccC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-------RSLIPSYIRD   81 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~   81 (208)
                      .-++.++|.|.+|||||+..|.+..........++.....-...+++  -++.+.|.||.-+-       ........+.
T Consensus        59 ~a~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavart  136 (358)
T KOG1487|consen   59 DARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVART  136 (358)
T ss_pred             ceeeeEEecCccchhhhhhhhcCCCCccccccceeEEEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEeec
Confidence            35899999999999999999987765444333443344344444444  46999999995431       2234445678


Q ss_pred             CcEEEEEEeCCChhh
Q 028507           82 SSVAVVVYDVASRQS   96 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s   96 (208)
                      |+.+++|.|+..|-+
T Consensus       137 cnli~~vld~~kp~~  151 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPLS  151 (358)
T ss_pred             ccEEEEEeeccCccc
Confidence            999999999876543

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.58  E-value=2.4e-07  Score=71.69  Aligned_cols=57  Identities=23%  Similarity=0.325  Sum_probs=40.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      ..++++++|.||+|||||+|+|.+.+. .....+.++  .....+..+.   .+.++||||.-
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T--~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVT--KAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeE--EEEEEEEeCC---cEEEEECCCcC
Confidence            458999999999999999999998765 333334433  3333444433   48899999964

>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=98.58  E-value=7.2e-08  Score=67.44  Aligned_cols=60  Identities=23%  Similarity=0.251  Sum_probs=34.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC------CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD------NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      -.++++|++|||||||+|.|......      .......-.+.....+..+.+   ..++||||...+.
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g---~~iIDTPGf~~~~  101 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDG---GYIIDTPGFRSFG  101 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTS---EEEECSHHHHT--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCC---cEEEECCCCCccc
Confidence            46789999999999999999976321      111111111223334444332   5899999976543

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.58  E-value=3.9e-07  Score=64.03  Aligned_cols=84  Identities=19%  Similarity=0.095  Sum_probs=55.5

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      |++++|+|+.+|.+...  .++.. ......++|+++|+||+|+.+.... ......+....+..++.+|++++.+++++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L   76 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKK   76 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhH
Confidence            68999999988765443  22221 1122245899999999998643221 11112232333567899999999999999


Q ss_pred             HHHHHHHc
Q 028507          163 FRKIAAAL  170 (208)
Q Consensus       163 ~~~l~~~~  170 (208)
                      ++.+.+..
T Consensus        77 ~~~i~~~~   84 (155)
T cd01849          77 ESAFTKQT   84 (155)
T ss_pred             HHHHHHHh
Confidence            99987654

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.56  E-value=1.9e-07  Score=65.64  Aligned_cols=57  Identities=19%  Similarity=0.233  Sum_probs=39.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      ....+++++|.+|+|||||+|.|.+... .....+.++.....  ....   ..+.++||||.
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~--~~~~---~~~~liDtPG~  155 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQE--VKLD---NKIKLLDTPGI  155 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEE--EEec---CCEEEEECCCC
Confidence            3568899999999999999999997653 33333444433332  2222   24899999983

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.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.56  E-value=2.9e-07  Score=83.51  Aligned_cols=113  Identities=22%  Similarity=0.235  Sum_probs=70.4

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcCCCCC----CC--ccceeeEEEEEEECCEEEEEEEEEcCCch--------hhhhchhh
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKFDNTY----QA--TIGIDFLSKTMYLEDRTVRLQLWDTAGQE--------RFRSLIPS   77 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~~~~~----~~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~   77 (208)
                      .+|+|++|+||||++..- +..++-..    ..  ..+-+. ....++.+   .-.++||+|.-        .....|..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~-~c~wwf~~---~avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTR-NCDWWFTD---EAVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCc-ccceEecC---CEEEEcCCCccccCCCcccccHHHHHH
Confidence            589999999999999876 33342211    11  111111 12222332   35699999921        11122332


Q ss_pred             h---------ccCCcEEEEEEeCCCh-----h----hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           78 Y---------IRDSSVAVVVYDVASR-----Q----SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        78 ~---------~~~~d~~i~v~d~~~~-----~----s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      +         -+..+|+|+++|+.+-     +    ....+...++++....+-.+||+|++||+|+...
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~G  258 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLAG  258 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhcC
Confidence            2         2458999999999742     1    1234566777788888889999999999998753

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.53  E-value=9.6e-06  Score=56.17  Aligned_cols=147  Identities=15%  Similarity=0.220  Sum_probs=83.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcC-Cchh--------------h--
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA-GQER--------------F--   71 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~-G~~~--------------~--   71 (208)
                      .+||.+.|+||+|||||+..+...--...   ...-.+...++...+....|.|+|+. |...              |  
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g---~kvgGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V   81 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKG---YKVGGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGV   81 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcC---ceeeeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEe
Confidence            48999999999999999988763221111   11113455566667777788888887 3111              1  


Q ss_pred             -----h----hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH
Q 028507           72 -----R----SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR  142 (208)
Q Consensus        72 -----~----~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~  142 (208)
                           .    ...+..+..+|++  ++|--.|.- .....+...+....+.+.|++..+.+.+..    .   -.+. ..
T Consensus        82 ~v~~le~i~~~al~rA~~~aDvI--IIDEIGpME-lks~~f~~~ve~vl~~~kpliatlHrrsr~----P---~v~~-ik  150 (179)
T COG1618          82 NVEGLEEIAIPALRRALEEADVI--IIDEIGPME-LKSKKFREAVEEVLKSGKPLIATLHRRSRH----P---LVQR-IK  150 (179)
T ss_pred             eHHHHHHHhHHHHHHHhhcCCEE--EEecccchh-hccHHHHHHHHHHhcCCCcEEEEEecccCC----h---HHHH-hh
Confidence                 1    0112223445554  466654421 123556666766666778888877766531    1   1122 22


Q ss_pred             hcCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          143 ELNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       143 ~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ..+..++.   .+.+|=+.+++.+...+..
T Consensus       151 ~~~~v~v~---lt~~NR~~i~~~Il~~L~~  177 (179)
T COG1618         151 KLGGVYVF---LTPENRNRILNEILSVLKG  177 (179)
T ss_pred             hcCCEEEE---EccchhhHHHHHHHHHhcc
Confidence            33333332   3455555888888777653

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.52  E-value=1.4e-07  Score=74.34  Aligned_cols=118  Identities=21%  Similarity=0.277  Sum_probs=86.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC--------cCCCC--------CCCccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD--------KFDNT--------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~--------~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      +-.+|.++.+..+||||.-.++++-        .++..        .....+++.....+.++.+.++++++||||+-+|
T Consensus        36 kirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf  115 (753)
T KOG0464|consen   36 KIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDF  115 (753)
T ss_pred             hhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceE
Confidence            4568999999999999999988631        11110        1122456666666666666689999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      .-....+++--|+++.|||.+..-....+.-|.+    ....++|-..++||+|....
T Consensus       116 ~leverclrvldgavav~dasagve~qtltvwrq----adk~~ip~~~finkmdk~~a  169 (753)
T KOG0464|consen  116 RLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQ----ADKFKIPAHCFINKMDKLAA  169 (753)
T ss_pred             EEEHHHHHHHhcCeEEEEeccCCcccceeeeehh----ccccCCchhhhhhhhhhhhh
Confidence            9999999999999999999984322233444443    44456898888999997543

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.50  E-value=8.3e-07  Score=66.15  Aligned_cols=83  Identities=22%  Similarity=0.156  Sum_probs=51.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC--cCCCCC---CCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhh------chh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD--KFDNTY---QATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRS------LIP   76 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~--~~~~~~---~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~------~~~   76 (208)
                      -.-|.|+|++++|||+|+|.|++.  .+....   ..|.++  ........ +....+.++||+|......      ...
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi--~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~   84 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGI--WMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARL   84 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccce--EEEeccccCCCcceEEEEecCCcCccccCchhhhhHH
Confidence            356889999999999999999988  553221   222222  22222221 2336799999999654322      112


Q ss_pred             hhcc--CCcEEEEEEeCCC
Q 028507           77 SYIR--DSSVAVVVYDVAS   93 (208)
Q Consensus        77 ~~~~--~~d~~i~v~d~~~   93 (208)
                      ..+.  -++.+|+..+.+.
T Consensus        85 ~~l~~llss~~i~n~~~~~  103 (224)
T cd01851          85 FALATLLSSVLIYNSWETI  103 (224)
T ss_pred             HHHHHHHhCEEEEeccCcc
Confidence            2223  3788888777764

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

>cd01856 YlqF YlqF

Probab=98.50  E-value=4.1e-07  Score=65.00  Aligned_cols=91  Identities=18%  Similarity=0.115  Sum_probs=60.9

Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEee
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETS  152 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  152 (208)
                      ......+.++|.+++|+|++++...... .+..    .. .+.|+++|+||+|+.++...  ....++....+..++.+|
T Consensus        11 ~~~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~----~~-~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~iS   82 (171)
T cd01856          11 RQIKEKLKLVDLVIEVRDARIPLSSRNP-LLEK----IL-GNKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFVN   82 (171)
T ss_pred             HHHHHHHhhCCEEEEEeeccCccCcCCh-hhHh----Hh-cCCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEEE
Confidence            3445668899999999999876432221 1111    11 24789999999998643211  111122233345789999


Q ss_pred             cCCCCChHHHHHHHHHHcC
Q 028507          153 AKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~  171 (208)
                      ++++.|++++.+.+...++
T Consensus        83 a~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          83 AKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             CCCcccHHHHHHHHHHHHH
Confidence            9999999999999988764

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.48  E-value=6.2e-07  Score=61.97  Aligned_cols=77  Identities=18%  Similarity=0.184  Sum_probs=52.5

Q ss_pred             hhhccCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeec
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFL--NTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSA  153 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa  153 (208)
                      ...+..+|++++|+|+.++.+..  .+..++...    ..++|+++|+||+|+.++..  ..+........+..++++|+
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~----~~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa   79 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV----DPRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSA   79 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc----cCCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEe
Confidence            34578999999999998875433  233333322    24589999999999865332  22334445556788999999


Q ss_pred             CCCCC
Q 028507          154 KAGFN  158 (208)
Q Consensus       154 ~~~~~  158 (208)
                      .++.+
T Consensus        80 ~~~~~   84 (141)
T cd01857          80 LKENA   84 (141)
T ss_pred             cCCCc
Confidence            98764

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.45  E-value=4.4e-07  Score=71.15  Aligned_cols=57  Identities=26%  Similarity=0.373  Sum_probs=42.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      +..++.|+|-||||||||||+|.+.+.. ....|  |.+.....+....   .+.++||||.-
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~P--G~Tk~~q~i~~~~---~i~LlDtPGii  188 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRP--GTTKGIQWIKLDD---GIYLLDTPGII  188 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccceeeCCCC--ceecceEEEEcCC---CeEEecCCCcC
Confidence            4588999999999999999999988762 23333  4455555555544   38999999954

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.45  E-value=1.9e-06  Score=67.38  Aligned_cols=95  Identities=17%  Similarity=0.071  Sum_probs=56.0

Q ss_pred             EEEEEEEEcCCchhhh--------hchh---h-hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 028507           57 TVRLQLWDTAGQERFR--------SLIP---S-YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT  124 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~--------~~~~---~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~  124 (208)
                      .+.+.|+||||.....        .+..   . .-...+..++|+|++..  .+.+.. ...+....   -+.-+|+||.
T Consensus       196 ~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g--~~~~~~-a~~f~~~~---~~~giIlTKl  269 (318)
T PRK10416        196 GIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTG--QNALSQ-AKAFHEAV---GLTGIILTKL  269 (318)
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCC--hHHHHH-HHHHHhhC---CCCEEEEECC
Confidence            3579999999954321        1111   1 11356788999999843  233322 22222221   2346777999


Q ss_pred             CCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507          125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       125 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      |....    .-.+...+...++|+.+++  +|++++++-
T Consensus       270 D~t~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~  302 (318)
T PRK10416        270 DGTAK----GGVVFAIADELGIPIKFIG--VGEGIDDLQ  302 (318)
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCChhhCc
Confidence            95332    2344555677799999888  888877653

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.45  E-value=4.1e-07  Score=74.70  Aligned_cols=117  Identities=20%  Similarity=0.227  Sum_probs=77.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc-----CC-------------CCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK-----FD-------------NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~-----~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      +--+|.+.-+-.+||||+-++.+.-.     ..             ......+++.-....+.+.  .++++++|||||-
T Consensus        38 k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~--~~~iNiIDTPGHv  115 (721)
T KOG0465|consen   38 KIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWR--DYRINIIDTPGHV  115 (721)
T ss_pred             hhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeec--cceeEEecCCCce
Confidence            34567888889999999998876311     10             1111223333333344444  5889999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      +|.--....++-.|+.|+|+++...-.-....-|.+ +.+   -++|-+..+||+|.....
T Consensus       116 DFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ-~~r---y~vP~i~FiNKmDRmGa~  172 (721)
T KOG0465|consen  116 DFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQ-MKR---YNVPRICFINKMDRMGAS  172 (721)
T ss_pred             eEEEEehhhhhhccCeEEEEEcccceehhhHHHHHH-HHh---cCCCeEEEEehhhhcCCC
Confidence            999989999999999999999873211112222322 222   359999999999986544

>PRK12288 GTPase RsgA; Reviewed

Probab=98.45  E-value=5e-07  Score=71.46  Aligned_cols=59  Identities=20%  Similarity=0.289  Sum_probs=35.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCC-CCCC---ccc--eeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDN-TYQA---TIG--IDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~-~~~~---~~~--~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      -++|+|.+|||||||+|+|++..... ...+   ..|  .+.....+.+.++   ..++||||...+.
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~---~~liDTPGir~~~  271 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHG---GDLIDSPGVREFG  271 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCC---CEEEECCCCCccc
Confidence            47899999999999999999654321 1111   111  1222333344332   3599999976644

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.41  E-value=5.9e-06  Score=61.21  Aligned_cols=156  Identities=16%  Similarity=0.198  Sum_probs=96.8

Q ss_pred             eeEEEEcCCCC--CHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC--EEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507           10 YKLVFLGDQSV--GKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED--RTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus        10 ~~i~vvG~~~~--GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..++|+|-+|+  ||.+|+.+|....+...........+..+++..+-  ..+.+.|.-.-  +++.-..........++
T Consensus         5 p~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwtid~kyysadi~lcishic--de~~lpn~~~a~pl~a~   82 (418)
T KOG4273|consen    5 PCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTIDNKYYSADINLCISHIC--DEKFLPNAEIAEPLQAF   82 (418)
T ss_pred             ceEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEecceeeecceeEEeeccc--chhccCCcccccceeeE
Confidence            46789999999  99999999998888655555444444444432211  11223332111  11111112223445689


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------------------------------
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK------------------------------------  129 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~------------------------------------  129 (208)
                      ++|||.+...++..++.|+....... . -..+.++||.|....                                    
T Consensus        83 vmvfdlse~s~l~alqdwl~htdins-f-dillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisetegs  160 (418)
T KOG4273|consen   83 VMVFDLSEKSGLDALQDWLPHTDINS-F-DILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETEGS  160 (418)
T ss_pred             EEEEeccchhhhHHHHhhcccccccc-c-hhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccccc
Confidence            99999999888999999987432221 1 123556799987531                                    


Q ss_pred             --------cCCCHHHHHHHHHhcCCeEEEeecCC------------CCChHHHHHHHHHH
Q 028507          130 --------RQVSIEEGEAKSRELNVMFIETSAKA------------GFNIKPLFRKIAAA  169 (208)
Q Consensus       130 --------~~~~~~~~~~~~~~~~~~~~~~sa~~------------~~~i~~~~~~l~~~  169 (208)
                              .-.....+..|+.++++.+++.++.+            ..|++.+|..|...
T Consensus       161 sllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ah  220 (418)
T KOG4273|consen  161 SLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAH  220 (418)
T ss_pred             cccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhc
Confidence                    00122446788889999999999853            33788999888553

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.40  E-value=3.5e-06  Score=67.02  Aligned_cols=144  Identities=14%  Similarity=0.100  Sum_probs=75.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC--C-CCCCccceeeE------------------EEEEEE---------CCEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD--N-TYQATIGIDFL------------------SKTMYL---------EDRTV   58 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~--~-~~~~~~~~~~~------------------~~~~~~---------~~~~~   58 (208)
                      .-.++|+|++|+||||++..|......  . ......+.+.+                  ......         .-...
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~  216 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNK  216 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCC
Confidence            457889999999999999988743210  0 00000000110                  000000         00124


Q ss_pred             EEEEEEcCCchhhhhch----hhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCC-----CcEEEEEeCCCCC
Q 028507           59 RLQLWDTAGQERFRSLI----PSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-----VIIVLVGNKTDLV  127 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~----~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~-----~piivv~nK~D~~  127 (208)
                      .+.++||+|........    ...  .....-.++|++++..  .+.+...+..+....+..     -+--+|+||.|..
T Consensus       217 DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~--~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt  294 (374)
T PRK14722        217 HMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSH--GDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEA  294 (374)
T ss_pred             CEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccC--hHHHHHHHHHHHHhhcccccccCCCCEEEEeccccC
Confidence            68999999965432221    111  1233456888998742  333333334443332100     1234666999953


Q ss_pred             cccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507          128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      .    ..-.+...+...+.++.+++  +|.++.
T Consensus       295 ~----~~G~~l~~~~~~~lPi~yvt--~Gq~VP  321 (374)
T PRK14722        295 S----NLGGVLDTVIRYKLPVHYVS--TGQKVP  321 (374)
T ss_pred             C----CccHHHHHHHHHCcCeEEEe--cCCCCC
Confidence            3    34556677777788777776  555544

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.39  E-value=5.6e-07  Score=68.70  Aligned_cols=59  Identities=19%  Similarity=0.189  Sum_probs=37.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      -.+++|++|||||||+|+|....-      ........=.+.....+..+++   -.|+||||..++.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~g---G~iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGG---GWIIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCC---CEEEeCCCCCccC
Confidence            578899999999999999985321      2222222222344455555433   3789999976643

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.39  E-value=1.8e-06  Score=66.19  Aligned_cols=94  Identities=16%  Similarity=0.064  Sum_probs=55.7

Q ss_pred             EEEEEEEcCCchhhhhchh-------hh-----ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           58 VRLQLWDTAGQERFRSLIP-------SY-----IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~-------~~-----~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                      +.+.|+||+|........-       ..     -...|..++|+|++..  .+.+.. ...+.+..   -+--+|+||.|
T Consensus       155 ~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~~-~~~f~~~~---~~~g~IlTKlD  228 (272)
T TIGR00064       155 IDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALEQ-AKVFNEAV---GLTGIILTKLD  228 (272)
T ss_pred             CCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHHH-HHHHHhhC---CCCEEEEEccC
Confidence            6799999999653222111       11     1248999999999742  222222 23333222   23466779999


Q ss_pred             CCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507          126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      .....    -.+.......+.|+.+++  +|++++++.
T Consensus       229 e~~~~----G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       229 GTAKG----GIILSIAYELKLPIKFIG--VGEKIDDLA  260 (272)
T ss_pred             CCCCc----cHHHHHHHHHCcCEEEEe--CCCChHhCc
Confidence            64332    344455556688888887  788776653

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.39  E-value=1.6e-06  Score=66.81  Aligned_cols=100  Identities=23%  Similarity=0.220  Sum_probs=65.4

Q ss_pred             CCchh-hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc
Q 028507           66 AGQER-FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL  144 (208)
Q Consensus        66 ~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~  144 (208)
                      |||-. ........+..+|++++|+|+.+|.+...  ..+..+.    .+.|+++|+||+|+.+....  ..........
T Consensus         5 pgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~~   76 (276)
T TIGR03596         5 PGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLADPAVT--KQWLKYFEEK   76 (276)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccCCHHHH--HHHHHHHHHc
Confidence            55442 23345566889999999999987644332  1111111    24899999999998643211  1111122334


Q ss_pred             CCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          145 NVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       145 ~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      +..++.+|++++.+++++.+.+.+.+.+.
T Consensus        77 ~~~vi~iSa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        77 GIKALAINAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHHHHh
Confidence            66889999999999999999998877543

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.

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.37  E-value=2.5e-05  Score=63.99  Aligned_cols=83  Identities=17%  Similarity=0.171  Sum_probs=54.6

Q ss_pred             EEEEEEEcCCch-------------hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeC
Q 028507           58 VRLQLWDTAGQE-------------RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNK  123 (208)
Q Consensus        58 ~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK  123 (208)
                      -++.++|.||.-             ..-.+...+..+.+++|+|+.--   +++.-......+-... ..+...|+|.+|
T Consensus       412 qRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDG---SVDAERSnVTDLVsq~DP~GrRTIfVLTK  488 (980)
T KOG0447|consen  412 QRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDG---SVDAERSIVTDLVSQMDPHGRRTIFVLTK  488 (980)
T ss_pred             ceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccC---CcchhhhhHHHHHHhcCCCCCeeEEEEee
Confidence            368999999932             23445667788999999997532   2222222222232222 245668999999


Q ss_pred             CCCCcccCCCHHHHHHHHHh
Q 028507          124 TDLVEKRQVSIEEGEAKSRE  143 (208)
Q Consensus       124 ~D~~~~~~~~~~~~~~~~~~  143 (208)
                      .|+++....++.+++....-
T Consensus       489 VDlAEknlA~PdRI~kIleG  508 (980)
T KOG0447|consen  489 VDLAEKNVASPSRIQQIIEG  508 (980)
T ss_pred             cchhhhccCCHHHHHHHHhc
Confidence            99999888888887776553

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.34  E-value=5.1e-06  Score=58.52  Aligned_cols=63  Identities=14%  Similarity=0.093  Sum_probs=36.3

Q ss_pred             EEEEEEEcCCchhhhhchhh--------hccCCcEEEEEEeCCChhhHH-HHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           58 VRLQLWDTAGQERFRSLIPS--------YIRDSSVAVVVYDVASRQSFL-NTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~--------~~~~~d~~i~v~d~~~~~s~~-~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                      ....++|++|..+.......        ..-..+.+++++|+....... ....+...+....      ++|+||+|+
T Consensus        87 ~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~ad------~ivlnk~dl  158 (158)
T cd03112          87 FDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFAD------RILLNKTDL  158 (158)
T ss_pred             CCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHCC------EEEEecccC
Confidence            46788999996543332221        234688999999986432211 1222333443222      667799995

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>PRK13796 GTPase YqeH; Provisional

Probab=98.33  E-value=6e-06  Score=65.99  Aligned_cols=93  Identities=30%  Similarity=0.422  Sum_probs=61.9

Q ss_pred             hhhhchhhhccCCc-EEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHH----HHhc
Q 028507           70 RFRSLIPSYIRDSS-VAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAK----SREL  144 (208)
Q Consensus        70 ~~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~----~~~~  144 (208)
                      .|...... +...+ .+++|+|+.+..     ..|...+....+ +.|+++|+||+|+... ....++...+    +...
T Consensus        58 ~~~~~l~~-i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~-~kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k~~  129 (365)
T PRK13796         58 DFLKLLNG-IGDSDALVVNVVDIFDFN-----GSWIPGLHRFVG-NNPVLLVGNKADLLPK-SVKKNKVKNWLRQEAKEL  129 (365)
T ss_pred             HHHHHHHh-hcccCcEEEEEEECccCC-----CchhHHHHHHhC-CCCEEEEEEchhhCCC-ccCHHHHHHHHHHHHHhc
Confidence            45554444 34445 999999998643     233444444332 5789999999999653 2233333333    4455


Q ss_pred             CC---eEEEeecCCCCChHHHHHHHHHHc
Q 028507          145 NV---MFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       145 ~~---~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++   .++.+||+++.|++++++.|.+..
T Consensus       130 g~~~~~v~~vSAk~g~gI~eL~~~I~~~~  158 (365)
T PRK13796        130 GLRPVDVVLISAQKGHGIDELLEAIEKYR  158 (365)
T ss_pred             CCCcCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            65   689999999999999999997753

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.32  E-value=1.4e-06  Score=65.87  Aligned_cols=57  Identities=21%  Similarity=0.207  Sum_probs=35.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCC------CC--CCccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDN------TY--QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~------~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      .-.++++|++|||||||+|+|.......      ..  ...++  .....+...+    ..++||||...+
T Consensus       120 ~~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT--~~~~l~~l~~----~~liDtPG~~~~  184 (245)
T TIGR00157       120 NRISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTT--THVELFHFHG----GLIADTPGFNEF  184 (245)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcC--CceEEEEcCC----cEEEeCCCcccc
Confidence            3468899999999999999999654311      11  11122  2222233333    379999996553

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

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.31  E-value=2.4e-05  Score=62.40  Aligned_cols=156  Identities=21%  Similarity=0.283  Sum_probs=86.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC--------------CCCCCCccceeeEE----------EEEEE-CCEEEEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF--------------DNTYQATIGIDFLS----------KTMYL-EDRTVRLQLW   63 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~--------------~~~~~~~~~~~~~~----------~~~~~-~~~~~~~~i~   63 (208)
                      ++=|.||||..+|||||+.+|-..-+              ++-+++..+.+...          ..+.+ ++-.+++.++
T Consensus        17 dIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLi   96 (492)
T PF09547_consen   17 DIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLI   96 (492)
T ss_pred             ceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEE
Confidence            46689999999999999999853211              11122222211111          22333 4557899999


Q ss_pred             EcCCch-------------------hhhhchh----------hhcc--CCcEEEEEEeCC----ChhhHHHH-HHHHHHH
Q 028507           64 DTAGQE-------------------RFRSLIP----------SYIR--DSSVAVVVYDVA----SRQSFLNT-SKWIDEV  107 (208)
Q Consensus        64 D~~G~~-------------------~~~~~~~----------~~~~--~~d~~i~v~d~~----~~~s~~~~-~~~~~~i  107 (208)
                      |+.|.-                   +|..-.+          ..+.  ..-|+++.=|.+    .++.+... .+.+.++
T Consensus        97 DCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~EL  176 (492)
T PF09547_consen   97 DCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEEL  176 (492)
T ss_pred             eecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHH
Confidence            999811                   0111000          0111  233666655554    23444433 3333334


Q ss_pred             HHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC--CChHHHHHHHHHH
Q 028507          108 RTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG--FNIKPLFRKIAAA  169 (208)
Q Consensus       108 ~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~--~~i~~~~~~l~~~  169 (208)
                      .   .-++|.+++.|-.+-..  ....+.+.....+++.+++.+++..-  +++..+++.++..
T Consensus       177 k---~igKPFvillNs~~P~s--~et~~L~~eL~ekY~vpVlpvnc~~l~~~DI~~Il~~vLyE  235 (492)
T PF09547_consen  177 K---EIGKPFVILLNSTKPYS--EETQELAEELEEKYDVPVLPVNCEQLREEDITRILEEVLYE  235 (492)
T ss_pred             H---HhCCCEEEEEeCCCCCC--HHHHHHHHHHHHHhCCcEEEeehHHcCHHHHHHHHHHHHhc
Confidence            3   34599999999887432  33455666677788988888876543  3444555444443

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.30  E-value=1.4e-06  Score=68.94  Aligned_cols=57  Identities=25%  Similarity=0.164  Sum_probs=34.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCc-----cceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDN-TYQAT-----IGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~-----~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .++|+|++|||||||+|+|+...... ...+.     .-.+.....+...++   ..++||||...
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g---~~liDTPG~~~  236 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNG---GLLADTPGFNQ  236 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCC---cEEEeCCCccc
Confidence            48999999999999999999654311 11111     001222233444332   37999999654

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.30  E-value=1.3e-05  Score=64.82  Aligned_cols=93  Identities=14%  Similarity=0.066  Sum_probs=50.5

Q ss_pred             EEEEEEEEcCCchhhhh-chh---h--hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           57 TVRLQLWDTAGQERFRS-LIP---S--YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~-~~~---~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      .+.+.|+||+|...... +..   .  .....+-+++|+|++-.....   .....+....   .+.-+|+||.|....-
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~---~~a~~F~~~~---~~~g~IlTKlD~~arg  255 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE---AQAKAFKDSV---DVGSVIITKLDGHAKG  255 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHH---HHHHHHHhcc---CCcEEEEECccCCCCc
Confidence            36799999999543211 111   1  123567899999987432222   1223332221   3456777999964322


Q ss_pred             CCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                          -.+.......+.|+.+++  +|+.+++
T Consensus       256 ----G~aLs~~~~t~~PI~fig--~Ge~v~D  280 (429)
T TIGR01425       256 ----GGALSAVAATKSPIIFIG--TGEHIDD  280 (429)
T ss_pred             ----cHHhhhHHHHCCCeEEEc--CCCChhh
Confidence                233444556677776665  4444433

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.29  E-value=1.2e-05  Score=66.25  Aligned_cols=139  Identities=16%  Similarity=0.154  Sum_probs=74.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC--------cC---CCCCCCc------------cceeeEEEEEE------E-CCEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD--------KF---DNTYQAT------------IGIDFLSKTMY------L-EDRTV   58 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~--------~~---~~~~~~~------------~~~~~~~~~~~------~-~~~~~   58 (208)
                      .-.|+|+|+.|+||||++..|...        ++   ..+....            .++........      + .-..+
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~  429 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDY  429 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccC
Confidence            457899999999999999887632        11   0000000            00111100000      0 01235


Q ss_pred             EEEEEEcCCchhhhhch----hhh-ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC
Q 028507           59 RLQLWDTAGQERFRSLI----PSY-IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS  133 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~----~~~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~  133 (208)
                      .+.|+||+|........    ..+ .......++|++.+.  +...+...+..+...    .+.-+|+||.|...    .
T Consensus       430 DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAts--s~~Dl~eii~~f~~~----~~~gvILTKlDEt~----~  499 (559)
T PRK12727        430 KLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANA--HFSDLDEVVRRFAHA----KPQGVVLTKLDETG----R  499 (559)
T ss_pred             CEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCC--ChhHHHHHHHHHHhh----CCeEEEEecCcCcc----c
Confidence            79999999954322110    000 001234567777763  344444444444332    45668889999622    3


Q ss_pred             HHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507          134 IEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      .-.+.......+.++.+++  +|..+
T Consensus       500 lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        500 FGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             hhHHHHHHHHhCCCEEEEe--CCCCc
Confidence            4566777778888887776  66666

>PRK01889 GTPase RsgA; Reviewed

Probab=98.27  E-value=5e-06  Score=66.21  Aligned_cols=83  Identities=16%  Similarity=0.154  Sum_probs=57.5

Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-hcCCeEEEeecCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-ELNVMFIETSAKAGF  157 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~  157 (208)
                      ..++|.+++|+++..+-....+.+++..+...   +++.++|+||+|+.+...   .....+.. ..+++++.+|++++.
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~---~i~piIVLNK~DL~~~~~---~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES---GAEPVIVLTKADLCEDAE---EKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc---CCCEEEEEEChhcCCCHH---HHHHHHHHhCCCCcEEEEECCCCc
Confidence            57899999999997433444455555544432   477788999999975411   11112221 447799999999999


Q ss_pred             ChHHHHHHHH
Q 028507          158 NIKPLFRKIA  167 (208)
Q Consensus       158 ~i~~~~~~l~  167 (208)
                      +++++..+|.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999998885

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.23  E-value=4.1e-06  Score=64.84  Aligned_cols=100  Identities=21%  Similarity=0.201  Sum_probs=65.5

Q ss_pred             cCCchh-hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh
Q 028507           65 TAGQER-FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE  143 (208)
Q Consensus        65 ~~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~  143 (208)
                      .|||-. -.......+..+|++++|+|+.++.+...  .++....    .+.|+++|+||+|+.+...  ......+...
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~----~~kp~iiVlNK~DL~~~~~--~~~~~~~~~~   78 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSEN--PMIDKII----GNKPRLLILNKSDLADPEV--TKKWIEYFEE   78 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh----CCCCEEEEEEchhcCCHHH--HHHHHHHHHH
Confidence            466542 23344556889999999999987644322  1122221    1489999999999854321  1111222234


Q ss_pred             cCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          144 LNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       144 ~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      .+..++.+|++++.+++++.+.+...+.+
T Consensus        79 ~~~~vi~vSa~~~~gi~~L~~~l~~~l~~  107 (287)
T PRK09563         79 QGIKALAINAKKGQGVKKILKAAKKLLKE  107 (287)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            46788999999999999999988887654

>PRK14974 cell division protein FtsY; Provisional

Probab=98.23  E-value=8.1e-06  Score=64.21  Aligned_cols=94  Identities=16%  Similarity=0.135  Sum_probs=54.9

Q ss_pred             EEEEEEEcCCchhhhh-ch---hhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRS-LI---PSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.++||+|...... +.   ...  ....|..++|+|++....  . ......+....   -.--+|+||.|....-.
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d--~-~~~a~~f~~~~---~~~giIlTKlD~~~~~G  296 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGND--A-VEQAREFNEAV---GIDGVILTKVDADAKGG  296 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchh--H-HHHHHHHHhcC---CCCEEEEeeecCCCCcc
Confidence            4599999999553211 11   111  235788999999974321  1 11122222222   12366679999744322


Q ss_pred             CCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507          132 VSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                          .+...+...+.|+.+++  +|++++++.
T Consensus       297 ----~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~  322 (336)
T PRK14974        297 ----AALSIAYVIGKPILFLG--VGQGYDDLI  322 (336)
T ss_pred             ----HHHHHHHHHCcCEEEEe--CCCChhhcc
Confidence                34445556788888887  789887764

>PRK13695 putative NTPase; Provisional

Probab=98.20  E-value=5.9e-05  Score=53.99  Aligned_cols=78  Identities=13%  Similarity=0.090  Sum_probs=42.5

Q ss_pred             ccCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC
Q 028507           79 IRDSSVAVVVYDVASR-QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF  157 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  157 (208)
                      +..+++  +++|--.+ +...  ..+.+.+......+.|++++.+|...       ...........+..+++++   .+
T Consensus        94 l~~~~~--lllDE~~~~e~~~--~~~~~~l~~~~~~~~~~i~v~h~~~~-------~~~~~~i~~~~~~~i~~~~---~~  159 (174)
T PRK13695         94 LEEADV--IIIDEIGKMELKS--PKFVKAVEEVLDSEKPVIATLHRRSV-------HPFVQEIKSRPGGRVYELT---PE  159 (174)
T ss_pred             cCCCCE--EEEECCCcchhhh--HHHHHHHHHHHhCCCeEEEEECchhh-------HHHHHHHhccCCcEEEEEc---ch
Confidence            445666  57784211 1111  22334444444456888998887532       1233444555566777774   44


Q ss_pred             ChHHHHHHHHHHc
Q 028507          158 NIKPLFRKIAAAL  170 (208)
Q Consensus       158 ~i~~~~~~l~~~~  170 (208)
                      |=+++.+.+.+.+
T Consensus       160 ~r~~~~~~~~~~~  172 (174)
T PRK13695        160 NRDSLPFEILNRL  172 (174)
T ss_pred             hhhhHHHHHHHHH
Confidence            5557777777654

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.20  E-value=6.1e-06  Score=62.02  Aligned_cols=117  Identities=16%  Similarity=0.313  Sum_probs=70.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCC----ccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhh----
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA----TIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRS----   73 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~----   73 (208)
                      .++|+-||..|.|||||++.|.+-++.....+    ..........+.-.+..++++|+||.|..+       |..    
T Consensus        42 ~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~iVdy  121 (406)
T KOG3859|consen   42 CFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPIVDY  121 (406)
T ss_pred             eEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccchHHHH
Confidence            48999999999999999999998887544333    333333333344456678999999999221       111    


Q ss_pred             ---chhhh-------------c--cCCcEEEEEEeCCChhhHHHHHH-HHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           74 ---LIPSY-------------I--RDSSVAVVVYDVASRQSFLNTSK-WIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        74 ---~~~~~-------------~--~~~d~~i~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                         ....|             +  ..+++.++.+..+.. ++..+.- .+..+.    ..+.||.++-|.|.....
T Consensus       122 idaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH-~LKslDLvtmk~Ld----skVNIIPvIAKaDtisK~  192 (406)
T KOG3859|consen  122 IDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGH-SLKSLDLVTMKKLD----SKVNIIPVIAKADTISKE  192 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCc-chhHHHHHHHHHHh----hhhhhHHHHHHhhhhhHH
Confidence               11111             1  246666666776642 3333221 122222    346677788888875543

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.20  E-value=7.6e-06  Score=58.15  Aligned_cols=136  Identities=17%  Similarity=0.256  Sum_probs=70.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEc-CCch--------------------
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT-AGQE--------------------   69 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~-~G~~--------------------   69 (208)
                      +|.|.|++|+|||||+.+++..-... ..+..  .+....+..++..+.+.+.|. .|..                    
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~-~~~v~--Gf~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~   77 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKK-GLPVG--GFYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHT-CGGEE--EEEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhcc-CCccc--eEEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            68999999999999999887433111 11111  233344445566666777777 3311                    


Q ss_pred             --hhhhc----hhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh
Q 028507           70 --RFRSL----IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE  143 (208)
Q Consensus        70 --~~~~~----~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~  143 (208)
                        .+...    ....+..++  ++|+|--.+-- .....|.+.+......++|++.++.+.-       .....+.+...
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mE-l~~~~F~~~v~~~l~s~~~vi~vv~~~~-------~~~~l~~i~~~  147 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKME-LKSPGFREAVEKLLDSNKPVIGVVHKRS-------DNPFLEEIKRR  147 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTC-CC-CHHHHHHHHHHCTTSEEEEE--SS---------SCCHHHHHTT
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhh-hcCHHHHHHHHHHHcCCCcEEEEEecCC-------CcHHHHHHHhC
Confidence              01111    111123445  77788654311 1134456666666667788888776652       01123455666


Q ss_pred             cCCeEEEeecCCCCCh
Q 028507          144 LNVMFIETSAKAGFNI  159 (208)
Q Consensus       144 ~~~~~~~~sa~~~~~i  159 (208)
                      .+..+++++..+.+.+
T Consensus       148 ~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  148 PDVKIFEVTEENRDAL  163 (168)
T ss_dssp             TTSEEEE--TTTCCCH
T ss_pred             CCcEEEEeChhHHhhH
Confidence            6788999877666554

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.20  E-value=2.6e-05  Score=56.85  Aligned_cols=91  Identities=15%  Similarity=0.057  Sum_probs=51.6

Q ss_pred             EEEEEEEcCCchhhhhc----hhhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRSL----IPSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.++||+|.......    ...+  ....+-+++|.+++..  .+.+.. ........+   +--+|+||.|...   
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~--~~~~~~-~~~~~~~~~---~~~lIlTKlDet~---  154 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMG--QEDLEQ-ALAFYEAFG---IDGLILTKLDETA---  154 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGG--GHHHHH-HHHHHHHSS---TCEEEEESTTSSS---
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccC--hHHHHH-HHHHhhccc---CceEEEEeecCCC---
Confidence            45899999995432211    1111  1257788999999843  223332 222222221   2245569999533   


Q ss_pred             CCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507          132 VSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                       ..-.+...+...+.|+-+++  +|++++
T Consensus       155 -~~G~~l~~~~~~~~Pi~~it--~Gq~V~  180 (196)
T PF00448_consen  155 -RLGALLSLAYESGLPISYIT--TGQRVD  180 (196)
T ss_dssp             -TTHHHHHHHHHHTSEEEEEE--SSSSTT
T ss_pred             -CcccceeHHHHhCCCeEEEE--CCCChh
Confidence             23456777778899888776  666663

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

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

Probab=98.19  E-value=3.7e-05  Score=60.19  Aligned_cols=88  Identities=31%  Similarity=0.271  Sum_probs=52.3

Q ss_pred             EEEEEEEcCCchhhhhchhhh--------ccCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           58 VRLQLWDTAGQERFRSLIPSY--------IRDSSVAVVVYDVASRQSFLN--TSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~--------~~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      ....++.+.|...-......+        .-..|++|-|+|+..-.....  .......+... +     +|++||.|+.
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~A-D-----~ivlNK~Dlv  158 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAFA-D-----VIVLNKTDLV  158 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHhC-c-----EEEEecccCC
Confidence            457788888866543322222        225678999999974322111  12333334322 2     7778999998


Q ss_pred             cccCCCHHHHHHHHHhcC--CeEEEeec
Q 028507          128 EKRQVSIEEGEAKSRELN--VMFIETSA  153 (208)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~--~~~~~~sa  153 (208)
                      ++..  .+..+.....++  ++++.++.
T Consensus       159 ~~~~--l~~l~~~l~~lnp~A~i~~~~~  184 (323)
T COG0523         159 DAEE--LEALEARLRKLNPRARIIETSY  184 (323)
T ss_pred             CHHH--HHHHHHHHHHhCCCCeEEEccc
Confidence            8764  344455555544  58888776

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=98.17  E-value=7.2e-06  Score=61.11  Aligned_cols=118  Identities=17%  Similarity=0.180  Sum_probs=76.4

Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh-------hHHHHHHHHHHHHHh----cCCCCcEEEEEeCCC
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ-------SFLNTSKWIDEVRTE----RGSDVIIVLVGNKTD  125 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-------s~~~~~~~~~~i~~~----~~~~~piivv~nK~D  125 (208)
                      .++|+.+|.+|+.+.+.-|-..+..+.++|||..++..+       +-..+++-+..+...    -...+.+|+..||.|
T Consensus       201 kv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqD  280 (379)
T KOG0099|consen  201 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQD  280 (379)
T ss_pred             ccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHH
Confidence            367999999999999999999999999999999987532       122233333322221    113466899999999


Q ss_pred             CCccc------------------------------CCCHHHHHHHHHhc-------------CCeEEEeecCCCCChHHH
Q 028507          126 LVEKR------------------------------QVSIEEGEAKSREL-------------NVMFIETSAKAGFNIKPL  162 (208)
Q Consensus       126 ~~~~~------------------------------~~~~~~~~~~~~~~-------------~~~~~~~sa~~~~~i~~~  162 (208)
                      +..+.                              .....+++.+....             -+....+.|.+.++|..+
T Consensus       281 llaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpHFTcAvDTenIrrV  360 (379)
T KOG0099|consen  281 LLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRV  360 (379)
T ss_pred             HHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccceeEeechHHHHHH
Confidence            86421                              01111222222211             134566888999999999


Q ss_pred             HHHHHHHcCCCc
Q 028507          163 FRKIAAALPGME  174 (208)
Q Consensus       163 ~~~l~~~~~~~~  174 (208)
                      |+-....+..++
T Consensus       361 FnDcrdiIqr~h  372 (379)
T KOG0099|consen  361 FNDCRDIIQRMH  372 (379)
T ss_pred             HHHHHHHHHHHH
Confidence            998877765544

>PRK13796 GTPase YqeH; Provisional

Probab=98.16  E-value=3.7e-06  Score=67.23  Aligned_cols=56  Identities=23%  Similarity=0.335  Sum_probs=37.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      ..++.++|.+|||||||+|+|+....      ..+..|.++.+  ...+..+++   ..++||||..
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~--~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLD--KIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccce--eEEEEcCCC---cEEEECCCcc
Confidence            34799999999999999999985431      12333444333  333344332   4799999964

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.16  E-value=2e-05  Score=60.37  Aligned_cols=97  Identities=19%  Similarity=0.231  Sum_probs=69.7

Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEE
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFI  149 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  149 (208)
                      ...+.+.-+.+.|-+++|+.+.+|+--.. +.+++-.. ...  ++..++++||+|+.+.......+.......+|++++
T Consensus        69 kn~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~a-e~~--gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~  145 (301)
T COG1162          69 KNVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLA-EAG--GIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVL  145 (301)
T ss_pred             cCceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHH-HHc--CCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEE
Confidence            34445555667899999999998864444 44444333 333  366677789999987665443455666677899999


Q ss_pred             EeecCCCCChHHHHHHHHHHc
Q 028507          150 ETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      .+|++++++++++.+.+...+
T Consensus       146 ~~s~~~~~~~~~l~~~l~~~~  166 (301)
T COG1162         146 FVSAKNGDGLEELAELLAGKI  166 (301)
T ss_pred             EecCcCcccHHHHHHHhcCCe
Confidence            999999999999999887765

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.15  E-value=5.6e-06  Score=66.07  Aligned_cols=56  Identities=23%  Similarity=0.339  Sum_probs=37.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .++.++|.+|||||||+|+|+....      ..+..|.++..  ...+..++   .+.++||||...
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~--~~~~~~~~---~~~l~DtPG~~~  216 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLD--LIEIPLDD---GHSLYDTPGIIN  216 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEee--EEEEEeCC---CCEEEECCCCCC
Confidence            4899999999999999999996432      22333443333  33333322   267999999653

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.11  E-value=7.2e-06  Score=63.45  Aligned_cols=60  Identities=23%  Similarity=0.175  Sum_probs=37.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCC-C-----CccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTY-Q-----ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~-~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      .-.++++|++|+|||||+|.|++....... .     .....+.....+...+.   ..++||||..++
T Consensus       161 ~k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~  226 (287)
T cd01854         161 GKTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREF  226 (287)
T ss_pred             cceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCcc
Confidence            357899999999999999999975432211 1     11112222333444322   368999997654

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.

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=98.09  E-value=8.9e-06  Score=58.74  Aligned_cols=111  Identities=17%  Similarity=0.193  Sum_probs=60.3

Q ss_pred             EEEEEEcCCchhhhhc---hhhh---ccCC---cEEEEEEeCC-ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           59 RLQLWDTAGQERFRSL---IPSY---IRDS---SVAVVVYDVA-SRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~---~~~~---~~~~---d~~i~v~d~~-~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      .+.++|+||+-+....   .+..   +.+.   =.+++++|.. =.++...+...+..+..-....+|.|=|.+|+|+..
T Consensus        99 dylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDLlk  178 (273)
T KOG1534|consen   99 DYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISLEVPHINVLSKMDLLK  178 (273)
T ss_pred             CEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHHhh
Confidence            4899999997664331   1111   2221   2445555543 012333344444444444445699999999999875


Q ss_pred             ccCCCHHHHHHH-------------------------------HHhcCC-eEEEeecCCCCChHHHHHHHHHHcC
Q 028507          129 KRQVSIEEGEAK-------------------------------SRELNV-MFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       129 ~~~~~~~~~~~~-------------------------------~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ..  +..+.++|                               ...++. .+++....+-++++.++..|...+.
T Consensus       179 ~~--~k~~l~~Fl~~d~~~l~~~~~~~~~s~Kf~~L~~~i~~~v~d~~Mv~FlPl~~~~eeSi~~iL~~ID~aiQ  251 (273)
T KOG1534|consen  179 DK--NKKELERFLNPDEYLLLEDSEINLRSPKFKKLTKCIAQLVDDYSMVNFLPLDSSDEESINIILSYIDDAIQ  251 (273)
T ss_pred             hh--hHHHHHHhcCCchhhhhcccccccccHHHHHHHHHHHHHhccccceeeeecCCCCHHHHHHHHHHHHHHHH
Confidence            41  11222221                               122233 5666766777777777777766554

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.09  E-value=6.5e-05  Score=60.80  Aligned_cols=152  Identities=16%  Similarity=0.119  Sum_probs=79.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCC---CCCCc--------------------cceeeEEEEEE-------ECCEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDN---TYQAT--------------------IGIDFLSKTMY-------LEDRT   57 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~---~~~~~--------------------~~~~~~~~~~~-------~~~~~   57 (208)
                      ..-.++++|+.|+||||++..|.+.....   .....                    .++......-.       ..-..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~  269 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRG  269 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcC
Confidence            34589999999999999999776431100   00000                    00000000000       00012


Q ss_pred             EEEEEEEcCCchhhhh----chhhh--ccCCcEEEEEEeCC-ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           58 VRLQLWDTAGQERFRS----LIPSY--IRDSSVAVVVYDVA-SRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      ..+.++||+|......    ....+  ....+-.++|+|++ ..+...   ..+..+..   . -+-=+|+||.|-..  
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~---~~~~~f~~---~-~~~~~I~TKlDEt~--  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLD---EVISAYQG---H-GIHGCIITKVDEAA--  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHH---HHHHHhcC---C-CCCEEEEEeeeCCC--
Confidence            3589999999553211    11111  12345677888988 333333   33332221   1 22345669999633  


Q ss_pred             CCCHHHHHHHHHhcCCeEEEeecCCCCCh-HHHH----HHHHHHcCC
Q 028507          131 QVSIEEGEAKSRELNVMFIETSAKAGFNI-KPLF----RKIAAALPG  172 (208)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i-~~~~----~~l~~~~~~  172 (208)
                        ..-.+...+...++++.+++  +|.++ +++.    +.|.+.+.+
T Consensus       341 --~~G~~l~~~~~~~lPi~yvt--~Gq~VP~Dl~~a~~~~lv~~ll~  383 (420)
T PRK14721        341 --SLGIALDAVIRRKLVLHYVT--NGQKVPEDLHEANSRYLLHRIFK  383 (420)
T ss_pred             --CccHHHHHHHHhCCCEEEEE--CCCCchhhhhhCCHHHHHHHHhc
Confidence              34456677778888888776  67776 3332    345555544

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.09  E-value=5.2e-05  Score=61.79  Aligned_cols=90  Identities=14%  Similarity=0.096  Sum_probs=51.7

Q ss_pred             EEEEEEEcCCchhhh----hchhhhcc---CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           58 VRLQLWDTAGQERFR----SLIPSYIR---DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~----~~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      +.+.|+||+|.....    .....++.   ...-.++|++++-  ....+...+..+...   + +--+|+||.|...  
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~--~~~~l~~~~~~f~~~---~-~~~vI~TKlDet~--  371 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATT--KYEDLKDIYKHFSRL---P-LDGLIFTKLDETS--  371 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCC--CHHHHHHHHHHhCCC---C-CCEEEEecccccc--
Confidence            569999999964322    11222222   2346677888863  223333333333211   1 1246679999632  


Q ss_pred             CCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507          131 QVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                        ....+...+...++++.+++  +|.++
T Consensus       372 --~~G~i~~~~~~~~lPv~yit--~Gq~V  396 (424)
T PRK05703        372 --SLGSILSLLIESGLPISYLT--NGQRV  396 (424)
T ss_pred             --cccHHHHHHHHHCCCEEEEe--CCCCC
Confidence              23456777788898887776  66665

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=98.08  E-value=5.5e-06  Score=65.23  Aligned_cols=155  Identities=17%  Similarity=0.203  Sum_probs=92.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCc--C-----------------------------CCCCCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDK--F-----------------------------DNTYQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~   55 (208)
                      -..++++++|...+||||+-..++...  +                             ........+.+.....+... 
T Consensus        77 k~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte-  155 (501)
T KOG0459|consen   77 KEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETE-  155 (501)
T ss_pred             CCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEec-
Confidence            357899999999999999977664211  0                             01111111222222222222 


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCC---hhhHHHH--HHHHHHHHHhcCCCCcEEEEEeCCCCCcc-
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVAS---RQSFLNT--SKWIDEVRTERGSDVIIVLVGNKTDLVEK-  129 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~--~~~~~~i~~~~~~~~piivv~nK~D~~~~-  129 (208)
                       ...++|.|+|||..|-...-.-..++|..++|+++--   ...|+.-  .+....+....+ -...++++||+|-..- 
T Consensus       156 -~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~g-v~~lVv~vNKMddPtvn  233 (501)
T KOG0459|consen  156 -NKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAG-VKHLIVLINKMDDPTVN  233 (501)
T ss_pred             -ceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhc-cceEEEEEEeccCCccC
Confidence             2469999999999988776667789999999998842   1233332  222222333332 2446778899996431 


Q ss_pred             -cCCCH----HHHHHHHHhcC------CeEEEeecCCCCChHHHHH
Q 028507          130 -RQVSI----EEGEAKSRELN------VMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus       130 -~~~~~----~~~~~~~~~~~------~~~~~~sa~~~~~i~~~~~  164 (208)
                       +.-..    .....+...+|      ..++++|..+|.++++...
T Consensus       234 Ws~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  234 WSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             cchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence             11112    22333444333      4789999999999887654

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.07  E-value=8.5e-06  Score=59.72  Aligned_cols=116  Identities=15%  Similarity=0.165  Sum_probs=70.0

Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhh----------HHHHHHHHHHHHHhc-CCCCcEEEEEeCCC
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQS----------FLNTSKWIDEVRTER-GSDVIIVLVGNKTD  125 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s----------~~~~~~~~~~i~~~~-~~~~piivv~nK~D  125 (208)
                      .+.+.++|.+|+...+.-|..++.+...+++++..+..+.          .+.-......+..+- =.+.++|+..||.|
T Consensus       198 ~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKkD  277 (359)
T KOG0085|consen  198 KIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKD  277 (359)
T ss_pred             hheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechhh
Confidence            3457788888887777777777777777777766653322          222222222222211 14577999999999


Q ss_pred             CCcccC----------------CCHHHHHHHHHhc----C------CeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          126 LVEKRQ----------------VSIEEGEAKSREL----N------VMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       126 ~~~~~~----------------~~~~~~~~~~~~~----~------~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +.++..                .....+.+|....    +      +.-..+.|.+.+||..+|..+...+..
T Consensus       278 lLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq  350 (359)
T KOG0085|consen  278 LLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQ  350 (359)
T ss_pred             hhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHH
Confidence            976421                1222333333221    1      123567889999999999988877643

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.06  E-value=9.2e-05  Score=58.95  Aligned_cols=155  Identities=17%  Similarity=0.155  Sum_probs=83.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC---CCCCCCccceeeEEE---------------E--EEEC----------CEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF---DNTYQATIGIDFLSK---------------T--MYLE----------DRTV   58 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~---~~~~~~~~~~~~~~~---------------~--~~~~----------~~~~   58 (208)
                      .-.|++|||.||||||-+..|...-.   ........+.|.+..               .  +...          -...
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            56789999999999999887764332   111111111111110               0  0000          0224


Q ss_pred             EEEEEEcCCchhhhhc----hhhhccC--CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           59 RLQLWDTAGQERFRSL----IPSYIRD--SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~----~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .+.++||.|...+...    ...++..  ..-..+|++++.  ....+.+.+..++..    ..--+|+||.|-.    .
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~--K~~dlkei~~~f~~~----~i~~~I~TKlDET----~  352 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATT--KYEDLKEIIKQFSLF----PIDGLIFTKLDET----T  352 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCc--chHHHHHHHHHhccC----CcceeEEEccccc----C
Confidence            6999999996654332    2223322  335566778773  345666666655432    1124556999953    2


Q ss_pred             CHHHHHHHHHhcCCeEEEeecCCCCChHH-H----HHHHHHHcCCCcc
Q 028507          133 SIEEGEAKSRELNVMFIETSAKAGFNIKP-L----FRKIAAALPGMET  175 (208)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~sa~~~~~i~~-~----~~~l~~~~~~~~~  175 (208)
                      +.-.....+.+.+.|+-+++  +|.+|-+ +    -.+|++.+.+...
T Consensus       353 s~G~~~s~~~e~~~PV~YvT--~GQ~VPeDI~va~~~~Lv~~~~g~~~  398 (407)
T COG1419         353 SLGNLFSLMYETRLPVSYVT--NGQRVPEDIVVANPDYLVRRILGTFA  398 (407)
T ss_pred             chhHHHHHHHHhCCCeEEEe--CCCCCCchhhhcChHHHHHHHhcccc
Confidence            34555666777777776665  5655432 2    2466666654433

>PRK00098 GTPase RsgA; Reviewed

Probab=98.06  E-value=9.7e-06  Score=63.08  Aligned_cols=59  Identities=20%  Similarity=0.101  Sum_probs=35.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCC-CCC-----ccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNT-YQA-----TIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~-~~~-----~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      ...++++|++|+|||||+|.|.+...... ..+     ..-.+.....+...+.   ..++||||...
T Consensus       164 gk~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~  228 (298)
T PRK00098        164 GKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSS  228 (298)
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCc
Confidence            44689999999999999999986543211 111     0001122233333322   47899999654

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=98.06  E-value=0.00023  Score=51.14  Aligned_cols=85  Identities=18%  Similarity=0.170  Sum_probs=58.3

Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHH
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIE  135 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~  135 (208)
                      ..+.+.|+|+|+....  .....+..+|.+++++..+. .+...+..+++.+...   +.++.+|+|+.|....   ...
T Consensus        91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~~-~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~~---~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPTP-SGLHDLERAVELVRHF---GIPVGVVINKYDLNDE---IAE  161 (179)
T ss_pred             cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCCc-ccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCcc---hHH
Confidence            3568999999964322  23445688999999999873 4556666666655543   3678899999986432   345


Q ss_pred             HHHHHHHhcCCeEE
Q 028507          136 EGEAKSRELNVMFI  149 (208)
Q Consensus       136 ~~~~~~~~~~~~~~  149 (208)
                      +.++++.+.+++++
T Consensus       162 ~~~~~~~~~~~~vl  175 (179)
T cd03110         162 EIEDYCEEEGIPIL  175 (179)
T ss_pred             HHHHHHHHcCCCeE
Confidence            66777777787655

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=98.03  E-value=0.00011  Score=52.57  Aligned_cols=83  Identities=13%  Similarity=0.069  Sum_probs=45.8

Q ss_pred             EEEEEEEcCCchhh----hhchhhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERF----RSLIPSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~----~~~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      ..+.|+|++|...+    ......+  ....+.+++|+|......   ...+...+....+   ..-+|.||.|......
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~~---~~~viltk~D~~~~~g  156 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEALG---ITGVILTKLDGDARGG  156 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhCC---CCEEEEECCcCCCCcc
Confidence            45889999996422    1111111  134899999999864432   2233444433332   2456669999754332


Q ss_pred             CCHHHHHHHHHhcCCeEEE
Q 028507          132 VSIEEGEAKSRELNVMFIE  150 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~  150 (208)
                          .+...+...++++..
T Consensus       157 ----~~~~~~~~~~~p~~~  171 (173)
T cd03115         157 ----AALSIRAVTGKPIKF  171 (173)
T ss_pred             ----hhhhhHHHHCcCeEe
Confidence                223355566666544

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

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

Probab=98.01  E-value=2.6e-05  Score=56.08  Aligned_cols=81  Identities=26%  Similarity=0.203  Sum_probs=43.0

Q ss_pred             EEEEEEEcCCchhhhhch--h---hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           58 VRLQLWDTAGQERFRSLI--P---SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~--~---~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      ....|+.+.|......+.  .   ...-..+.+|.|+|+..-.........+..-...++     ++++||+|+.+..+ 
T Consensus        85 ~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~AD-----vIvlnK~D~~~~~~-  158 (178)
T PF02492_consen   85 PDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAFAD-----VIVLNKIDLVSDEQ-  158 (178)
T ss_dssp             -SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT-S-----EEEEE-GGGHHHH--
T ss_pred             cCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchhcC-----EEEEeccccCChhh-
Confidence            457788888855544431  0   012356899999999654323333332222222322     77789999977652 


Q ss_pred             CHHHHHHHHHhc
Q 028507          133 SIEEGEAKSREL  144 (208)
Q Consensus       133 ~~~~~~~~~~~~  144 (208)
                      ..++.++..++.
T Consensus       159 ~i~~~~~~ir~l  170 (178)
T PF02492_consen  159 KIERVREMIREL  170 (178)
T ss_dssp             -HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            234555555544

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

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.01  E-value=8e-05  Score=60.25  Aligned_cols=119  Identities=16%  Similarity=0.159  Sum_probs=77.9

Q ss_pred             EEEEE-CCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhh-------HHHHHHHHHHHHHhc----CCCCc
Q 028507           49 KTMYL-EDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQS-------FLNTSKWIDEVRTER----GSDVI  116 (208)
Q Consensus        49 ~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s-------~~~~~~~~~~i~~~~----~~~~p  116 (208)
                      ..+.+ .+  ..+.++|.+|+...+.-|..++.+++++|||+++++.+.       ...+.+-+..+....    -.+.|
T Consensus       228 ~~f~~~~~--~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~  305 (389)
T PF00503_consen  228 IDFNFSGS--RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTP  305 (389)
T ss_dssp             EEEEE-TT--EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSE
T ss_pred             EEEEeecc--cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCc
Confidence            34444 44  679999999999889999999999999999999874321       122333333333322    25699


Q ss_pred             EEEEEeCCCCCcc----------------c--CCCHHHHHHHHHhc------------CCeEEEeecCCCCChHHHHHHH
Q 028507          117 IVLVGNKTDLVEK----------------R--QVSIEEGEAKSREL------------NVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus       117 iivv~nK~D~~~~----------------~--~~~~~~~~~~~~~~------------~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      ++|++||.|+..+                .  .-..+.+..+....            .+.++.++|.+..++..+|+.+
T Consensus       306 iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v  385 (389)
T PF00503_consen  306 IILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAV  385 (389)
T ss_dssp             EEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHH
T ss_pred             eEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHh
Confidence            9999999997532                0  02234444443321            1256688888888888888888


Q ss_pred             HHH
Q 028507          167 AAA  169 (208)
Q Consensus       167 ~~~  169 (208)
                      .+.
T Consensus       386 ~~~  388 (389)
T PF00503_consen  386 KDI  388 (389)
T ss_dssp             HHH
T ss_pred             cCc
Confidence            764

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.99  E-value=0.0002  Score=56.19  Aligned_cols=85  Identities=11%  Similarity=0.090  Sum_probs=47.3

Q ss_pred             EEEEEEEcCCchhhhhchhhhc--------cCCcEEEEEEeCCChhhHH-HHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           58 VRLQLWDTAGQERFRSLIPSYI--------RDSSVAVVVYDVASRQSFL-NTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s~~-~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      ....++++.|......+...+.        -..+++|.|+|+.+-.... ........+... +     +|++||+|+..
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~A-D-----~IvlnK~Dl~~  164 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYA-D-----RILLTKTDVAG  164 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHHhC-C-----EEEEeccccCC
Confidence            4567889999765544443321        1358899999996422111 111122233222 1     77779999876


Q ss_pred             ccCCCHHHHHHHHHhcC--CeEEEee
Q 028507          129 KRQVSIEEGEAKSRELN--VMFIETS  152 (208)
Q Consensus       129 ~~~~~~~~~~~~~~~~~--~~~~~~s  152 (208)
                      +.    ++.....+.++  ++++.++
T Consensus       165 ~~----~~~~~~l~~lnp~a~i~~~~  186 (318)
T PRK11537        165 EA----EKLRERLARINARAPVYTVV  186 (318)
T ss_pred             HH----HHHHHHHHHhCCCCEEEEec
Confidence            42    34555555443  4666654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.98  E-value=0.00012  Score=58.62  Aligned_cols=140  Identities=19%  Similarity=0.201  Sum_probs=74.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC----c--C---CCCCCC------------ccceeeEEEEE--E----E---C-CEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD----K--F---DNTYQA------------TIGIDFLSKTM--Y----L---E-DRT   57 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~----~--~---~~~~~~------------~~~~~~~~~~~--~----~---~-~~~   57 (208)
                      ...|+|+|+.|+||||++..|...    .  +   ..+...            ..++......-  .    +   . ...
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~  320 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEAR  320 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccC
Confidence            368999999999999999988521    1  1   011110            00111110000  0    0   0 012


Q ss_pred             EEEEEEEcCCchhhhhc----hhhhc--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRSL----IPSYI--RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~----~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.|+||+|.......    ....+  ...+.+++|+|++-.  ...+...+..+.. .   -.--+|+||.|...   
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk--~~d~~~i~~~F~~-~---~idglI~TKLDET~---  391 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKD-I---HIDGIVFTKFDETA---  391 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccC--hHHHHHHHHHhcC-C---CCCEEEEEcccCCC---
Confidence            57899999995432111    11122  235678888998622  2333344444432 1   22355669999643   


Q ss_pred             CCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507          132 VSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                       ..-.+...+...++|+.+++  +|+++-
T Consensus       392 -k~G~iLni~~~~~lPIsyit--~GQ~VP  417 (436)
T PRK11889        392 -SSGELLKIPAVSSAPIVLMT--DGQDVK  417 (436)
T ss_pred             -CccHHHHHHHHHCcCEEEEe--CCCCCC
Confidence             23455666777788877765  555543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.95  E-value=7e-05  Score=59.56  Aligned_cols=92  Identities=17%  Similarity=0.170  Sum_probs=51.5

Q ss_pred             EEEEEEEcCCchhhhh----chhhhc--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRS----LIPSYI--RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.|+||+|......    ....+.  ...+.+++|.+++  ....++...+..+.   .. -+--+|+||.|...   
T Consensus       286 ~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag--~~~~d~~~i~~~f~---~l-~i~glI~TKLDET~---  356 (407)
T PRK12726        286 VDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSG--MKSADVMTILPKLA---EI-PIDGFIITKMDETT---  356 (407)
T ss_pred             CCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCc--ccHHHHHHHHHhcC---cC-CCCEEEEEcccCCC---
Confidence            5799999999643221    111122  2446667777764  22333333333321   11 22356679999632   


Q ss_pred             CCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          132 VSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                       ..-.+...+...+.|+.+++  +|+++.+
T Consensus       357 -~~G~~Lsv~~~tglPIsylt--~GQ~Vpd  383 (407)
T PRK12726        357 -RIGDLYTVMQETNLPVLYMT--DGQNITE  383 (407)
T ss_pred             -CccHHHHHHHHHCCCEEEEe--cCCCCCc
Confidence             24456667778888887776  5665553

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.92  E-value=0.00021  Score=61.70  Aligned_cols=106  Identities=15%  Similarity=0.092  Sum_probs=58.4

Q ss_pred             EEEEEEEcCCchhhhh----chhhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRS----LIPSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.|+||+|......    .....  ....+-.++|+|++.  ..+.+...+..+......+ +-=+|+||.|-..   
T Consensus       264 ~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~--~~~~l~~i~~~f~~~~~~~-i~glIlTKLDEt~---  337 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAAS--HGDTLNEVVHAYRHGAGED-VDGCIITKLDEAT---  337 (767)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCC--cHHHHHHHHHHHhhcccCC-CCEEEEeccCCCC---
Confidence            4689999999332111    11111  234556788999873  2233333333333221111 2245669999643   


Q ss_pred             CCHHHHHHHHHhcCCeEEEeecCCCCCh-HHHH----HHHHHHcCC
Q 028507          132 VSIEEGEAKSRELNVMFIETSAKAGFNI-KPLF----RKIAAALPG  172 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i-~~~~----~~l~~~~~~  172 (208)
                       ..-.+.......++++.+++  +|++| +++.    +.+.+.+..
T Consensus       338 -~~G~iL~i~~~~~lPI~yit--~GQ~VPdDL~~a~~~~lv~~ll~  380 (767)
T PRK14723        338 -HLGPALDTVIRHRLPVHYVS--TGQKVPEHLELAQADELVDRAFA  380 (767)
T ss_pred             -CccHHHHHHHHHCCCeEEEe--cCCCChhhcccCCHHHHHHHHhc
Confidence             23455666777888888776  67777 4443    345555544

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.92  E-value=0.00012  Score=60.19  Aligned_cols=103  Identities=12%  Similarity=0.071  Sum_probs=55.7

Q ss_pred             EEEEEEcCCchhhhhch---hhhccC---CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           59 RLQLWDTAGQERFRSLI---PSYIRD---SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~---~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .+.++||+|........   ...+..   ..-.++|+|++..  ...+......+..    ...--+|+||.|-..    
T Consensus       336 d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~--~~~l~~i~~~f~~----~~~~g~IlTKlDet~----  405 (484)
T PRK06995        336 HIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSH--GDTLNEVVQAYRG----PGLAGCILTKLDEAA----  405 (484)
T ss_pred             CeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCc--HHHHHHHHHHhcc----CCCCEEEEeCCCCcc----
Confidence            58899999943322110   011111   2236788888732  2333322222221    123356679999532    


Q ss_pred             CHHHHHHHHHhcCCeEEEeecCCCCCh-HHHH----HHHHHHcCCC
Q 028507          133 SIEEGEAKSRELNVMFIETSAKAGFNI-KPLF----RKIAAALPGM  173 (208)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~sa~~~~~i-~~~~----~~l~~~~~~~  173 (208)
                      ..-.+...+...++++.+++  +|++| +++.    +.|++.+.+.
T Consensus       406 ~~G~~l~i~~~~~lPI~yvt--~GQ~VPeDL~~a~~~~lv~~ll~~  449 (484)
T PRK06995        406 SLGGALDVVIRYKLPLHYVS--NGQRVPEDLHLANKKFLLHRAFCA  449 (484)
T ss_pred             cchHHHHHHHHHCCCeEEEe--cCCCChhhhccCCHHHHHHHHhcC
Confidence            34566777778888888776  67777 4443    3455555443

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.89  E-value=2.3e-05  Score=63.53  Aligned_cols=125  Identities=21%  Similarity=0.247  Sum_probs=75.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc------------CC----CCCCCccceeeEEEEEE--------------ECCEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK------------FD----NTYQATIGIDFLSKTMY--------------LEDRTVR   59 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~------------~~----~~~~~~~~~~~~~~~~~--------------~~~~~~~   59 (208)
                      -++-++.+...|||||-..|....            |-    .+.+..+++.-....+.              .++..+-
T Consensus        20 RNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~FL   99 (842)
T KOG0469|consen   20 RNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNGFL   99 (842)
T ss_pred             ccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCccee
Confidence            356778889999999999887321            10    01111111111111111              1234567


Q ss_pred             EEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc-ccCCCHHHHH
Q 028507           60 LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE-KRQVSIEEGE  138 (208)
Q Consensus        60 ~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~-~~~~~~~~~~  138 (208)
                      ++++|.|||-+|.+.....++-.|+.++|+|+-+.--...-.-+.+.+...    +.-++++||.|.+- +-++..++..
T Consensus       100 iNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~ER----IkPvlv~NK~DRAlLELq~~~EeLy  175 (842)
T KOG0469|consen  100 INLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAER----IKPVLVMNKMDRALLELQLSQEELY  175 (842)
T ss_pred             EEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHhh----ccceEEeehhhHHHHhhcCCHHHHH
Confidence            999999999999999999999999999999987532222222223444333    33366779999642 2334444443

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.88  E-value=7e-05  Score=67.23  Aligned_cols=112  Identities=21%  Similarity=0.195  Sum_probs=66.1

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcCCC--CC----CCccceeeEEEEEEECCEEEEEEEEEcCCch--------hhhhchhh
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKFDN--TY----QATIGIDFLSKTMYLEDRTVRLQLWDTAGQE--------RFRSLIPS   77 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~~~--~~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~   77 (208)
                      -+|+|++|+||||++..- +..|+-  ..    ....+ +..+ ...+.+   .-.++||.|..        .-...|..
T Consensus       128 y~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~~~~~g-T~~c-dwwf~d---eaVlIDtaGry~~q~s~~~~~~~~W~~  201 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNS-GLQFPLAEQMGALGLAGPG-TRNC-DWWFTD---EAVLIDTAGRYITQDSADEVDRAEWLG  201 (1188)
T ss_pred             eEEecCCCCCcchHHhcc-cccCcchhhhccccccCCC-Cccc-Cccccc---ceEEEcCCcceecccCcchhhHHHHHH
Confidence            479999999999998532 222211  10    01111 1111 122222   36788988821        11112222


Q ss_pred             h---------ccCCcEEEEEEeCCC-----hhh----HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           78 Y---------IRDSSVAVVVYDVAS-----RQS----FLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        78 ~---------~~~~d~~i~v~d~~~-----~~s----~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      +         .+..+|+|+.+|+.+     +..    ...+...++++....+-..||+|++||.|+...
T Consensus       202 fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~G  271 (1188)
T COG3523         202 FLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLPG  271 (1188)
T ss_pred             HHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEeccccccc
Confidence            2         457899999999863     111    223455577777777778999999999999764

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.86  E-value=0.00021  Score=57.40  Aligned_cols=106  Identities=9%  Similarity=0.041  Sum_probs=59.6

Q ss_pred             EEEEEEEcCCchhhhh----chhhhccC---CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           58 VRLQLWDTAGQERFRS----LIPSYIRD---SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~----~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      +.+.++||+|......    -....+..   -+-.++|+|++..  ...+...+.....   . -+-=+|+||.|-..  
T Consensus       255 ~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~~---~-~~~~~I~TKlDet~--  326 (388)
T PRK12723        255 FDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFSP---F-SYKTVIFTKLDETT--  326 (388)
T ss_pred             CCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhcC---C-CCCEEEEEeccCCC--
Confidence            5699999999543221    11112222   2257899999843  3444433333321   1 22355669999533  


Q ss_pred             CCCHHHHHHHHHhcCCeEEEeecCCCCCh-HHHH----HHHHHHcCCCcc
Q 028507          131 QVSIEEGEAKSRELNVMFIETSAKAGFNI-KPLF----RKIAAALPGMET  175 (208)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i-~~~~----~~l~~~~~~~~~  175 (208)
                        ..-.+...+...+.|+.+++  +|+++ +++.    ..+++.+..+.-
T Consensus       327 --~~G~~l~~~~~~~~Pi~yit--~Gq~vPeDl~~~~~~~~~~~l~g~~~  372 (388)
T PRK12723        327 --CVGNLISLIYEMRKEVSYVT--DGQIVPHNISIAEPLTFIKKINGYRI  372 (388)
T ss_pred             --cchHHHHHHHHHCCCEEEEe--CCCCChhhhhhCCHHHHHHHhcCCCc
Confidence              23455666777788877775  67776 4443    356666655543

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.82  E-value=0.00013  Score=58.79  Aligned_cols=134  Identities=19%  Similarity=0.202  Sum_probs=69.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc-------C---CCCCCC------------ccceeeEEEE-E-----EECCEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK-------F---DNTYQA------------TIGIDFLSKT-M-----YLEDRTVRL   60 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~-------~---~~~~~~------------~~~~~~~~~~-~-----~~~~~~~~~   60 (208)
                      ..-++|+|++|+||||++..|....       .   ..+...            ..+.+..... .     ......+.+
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D~  302 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGSEL  302 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCCE
Confidence            3458899999999999998886321       0   000000            0011111000 0     001123568


Q ss_pred             EEEEcCCchhhhh----chhhhcc-----CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           61 QLWDTAGQERFRS----LIPSYIR-----DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        61 ~i~D~~G~~~~~~----~~~~~~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      .++||+|......    .+..++.     ...-.++|+|++..  .+.+...+..+.. .   -+--+|+||.|-..   
T Consensus       303 VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~--~~~~~~~~~~f~~-~---~~~glIlTKLDEt~---  373 (432)
T PRK12724        303 ILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSS--YHHTLTVLKAYES-L---NYRRILLTKLDEAD---  373 (432)
T ss_pred             EEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCC--HHHHHHHHHHhcC-C---CCCEEEEEcccCCC---
Confidence            9999999542111    1111111     23467889998743  2333333333311 1   22355669999632   


Q ss_pred             CCHHHHHHHHHhcCCeEEEee
Q 028507          132 VSIEEGEAKSRELNVMFIETS  152 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~s  152 (208)
                       ..-.+...+...+.|+.+++
T Consensus       374 -~~G~il~i~~~~~lPI~ylt  393 (432)
T PRK12724        374 -FLGSFLELADTYSKSFTYLS  393 (432)
T ss_pred             -CccHHHHHHHHHCCCEEEEe
Confidence             23445666777788777665

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.79  E-value=5e-05  Score=61.89  Aligned_cols=90  Identities=17%  Similarity=0.059  Sum_probs=50.1

Q ss_pred             EEEEEEcCCchhhhhc-h---h--hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           59 RLQLWDTAGQERFRSL-I---P--SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~-~---~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .+.|+||+|....... .   .  ......|.+++|+|++...  + .......+....   -..-+|.||.|....   
T Consensus       177 DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq--~-av~~a~~F~~~l---~i~gvIlTKlD~~a~---  247 (437)
T PRK00771        177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ--Q-AKNQAKAFHEAV---GIGGIIITKLDGTAK---  247 (437)
T ss_pred             CEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH--H-HHHHHHHHHhcC---CCCEEEEecccCCCc---
Confidence            6899999995442211 1   1  1134678999999987532  2 222223332221   123566799996332   


Q ss_pred             CHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507          133 SIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                       .-.+.......+.|+.+++  +|+.++
T Consensus       248 -~G~~ls~~~~~~~Pi~fig--~Ge~v~  272 (437)
T PRK00771        248 -GGGALSAVAETGAPIKFIG--TGEKID  272 (437)
T ss_pred             -ccHHHHHHHHHCcCEEEEe--cCCCcc
Confidence             2344556667788777766  344443

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.78  E-value=0.00014  Score=41.39  Aligned_cols=45  Identities=16%  Similarity=0.178  Sum_probs=31.2

Q ss_pred             cCCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           80 RDSSVAVVVYDVASR--QSFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                      .-.++++|++|.+..  .+.+.....+.+++.... +.|+++|.||+|
T Consensus        12 hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~-~~P~i~V~nK~D   58 (58)
T PF06858_consen   12 HLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFP-NKPVIVVLNKID   58 (58)
T ss_dssp             GT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTT-TS-EEEEE--TT
T ss_pred             hhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcC-CCCEEEEEeccC
Confidence            456899999999853  467778888888888773 699999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

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

Probab=97.78  E-value=0.00011  Score=51.25  Aligned_cols=58  Identities=16%  Similarity=0.154  Sum_probs=35.2

Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                      .+.+.|+||+|.....   ..++..+|-+|+|...+-.+.+..++   ..+...++     ++++||+|
T Consensus        91 ~~D~iiIDtaG~~~~~---~~~~~~Ad~~ivv~tpe~~D~y~~~k---~~~~~~~~-----~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQSE---VDIASMADTTVVVMAPGAGDDIQAIK---AGIMEIAD-----IVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChhh---hhHHHhCCEEEEEECCCchhHHHHhh---hhHhhhcC-----EEEEeCCC
Confidence            3579999998854222   34788999999988876323222211   12222222     77789987

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.77  E-value=3.2e-05  Score=62.81  Aligned_cols=56  Identities=25%  Similarity=0.294  Sum_probs=40.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      .+.|.+||-|||||||+||+|.+.+.. .+..|+.+..+  -++.+..   .+.+.|+||.-
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHF--QTi~ls~---~v~LCDCPGLV  370 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHF--QTIFLSP---SVCLCDCPGLV  370 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCccee--EEEEcCC---CceecCCCCcc
Confidence            589999999999999999999988753 34445544333  3333333   37899999954

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=97.74  E-value=0.00058  Score=50.47  Aligned_cols=61  Identities=31%  Similarity=0.371  Sum_probs=39.0

Q ss_pred             EEEEEcC-CchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           60 LQLWDTA-GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        60 ~~i~D~~-G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                      +.++||- |.+.|.   +....++|.+|+|+|.+- .++....+ +.++....+ -.++.+|.||.|-
T Consensus       136 ~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~-~sl~taer-i~~L~~elg-~k~i~~V~NKv~e  197 (255)
T COG3640         136 VVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSY-KSLRTAER-IKELAEELG-IKRIFVVLNKVDE  197 (255)
T ss_pred             EEEEecccchhhhc---cccccCCCEEEEEeCCcH-HHHHHHHH-HHHHHHHhC-CceEEEEEeeccc
Confidence            5555552 333322   344678999999999983 45555444 444444443 3789999999984

>PRK10867 signal recognition particle protein; Provisional

Probab=97.72  E-value=0.00069  Score=55.27  Aligned_cols=85  Identities=11%  Similarity=0.024  Sum_probs=47.1

Q ss_pred             EEEEEEEcCCchhhhh-ch---hhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRS-LI---PSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.|+||+|...... ..   ..+  .-..+.+++|+|+...   .........+....   -..-+|.||.|-.....
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g---q~av~~a~~F~~~~---~i~giIlTKlD~~~rgG  257 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG---QDAVNTAKAFNEAL---GLTGVILTKLDGDARGG  257 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH---HHHHHHHHHHHhhC---CCCEEEEeCccCccccc
Confidence            5699999999432211 11   111  2256788999998743   22223333333222   12356669999533222


Q ss_pred             CCHHHHHHHHHhcCCeEEEee
Q 028507          132 VSIEEGEAKSRELNVMFIETS  152 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~s  152 (208)
                          .+.......++|+.+++
T Consensus       258 ----~alsi~~~~~~PI~fig  274 (433)
T PRK10867        258 ----AALSIRAVTGKPIKFIG  274 (433)
T ss_pred             ----HHHHHHHHHCcCEEEEe
Confidence                35556667788777665

>TIGR00959 ffh signal recognition particle protein

Probab=97.71  E-value=0.00062  Score=55.49  Aligned_cols=86  Identities=15%  Similarity=0.104  Sum_probs=48.7

Q ss_pred             EEEEEEEcCCchhhhh-chh---h--hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRS-LIP---S--YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~~---~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.|+||+|...... ...   .  ..-..+.+++|+|++...   ....+...+....+   ..-+|.||.|-.... 
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v~---i~giIlTKlD~~~~~-  255 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERLG---LTGVVLTKLDGDARG-  255 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhCC---CCEEEEeCccCcccc-
Confidence            5699999999432211 111   1  123578889999987432   33333333433221   235557999953322 


Q ss_pred             CCHHHHHHHHHhcCCeEEEeec
Q 028507          132 VSIEEGEAKSRELNVMFIETSA  153 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~sa  153 (208)
                         -.+...+...++|+.+++.
T Consensus       256 ---G~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       256 ---GAALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             ---cHHHHHHHHHCcCEEEEeC
Confidence               2356666777888777653

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.69  E-value=0.00018  Score=49.48  Aligned_cols=66  Identities=12%  Similarity=0.105  Sum_probs=46.3

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      +.+.++|+|+..  .......+..+|.++++.+.+ +.++..+...++.+.... ...++.+|+|+.+..
T Consensus        45 yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~-~~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~~  110 (139)
T cd02038          45 YDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE-PTSITDAYALIKKLAKQL-RVLNFRVVVNRAESP  110 (139)
T ss_pred             CCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC-hhHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCCH
Confidence            679999999743  333456788999999999987 455666566666665433 345677888999743

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.68  E-value=0.00033  Score=53.61  Aligned_cols=139  Identities=18%  Similarity=0.175  Sum_probs=74.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc----C-----CCCCCC------------ccceeeEEEEEE---------E-CCEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK----F-----DNTYQA------------TIGIDFLSKTMY---------L-EDRTV   58 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~----~-----~~~~~~------------~~~~~~~~~~~~---------~-~~~~~   58 (208)
                      -+++++|++|+||||++..+...-    .     ......            ..+.+.......         . ....+
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~  155 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  155 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCC
Confidence            689999999999999998775321    1     000000            011111110000         0 01135


Q ss_pred             EEEEEEcCCchhhhh-c---hhhh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           59 RLQLWDTAGQERFRS-L---IPSY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~-~---~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .+.|+||+|...... .   +..+  ....+-.++|+|++..  ...+..++..+.. .   .+--+|+||.|...    
T Consensus       156 D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~--~~d~~~~~~~f~~-~---~~~~~I~TKlDet~----  225 (270)
T PRK06731        156 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKD-I---HIDGIVFTKFDETA----  225 (270)
T ss_pred             CEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccC--HHHHHHHHHHhCC-C---CCCEEEEEeecCCC----
Confidence            799999999553211 1   1111  1245678999998722  2333333343332 1   22356669999644    


Q ss_pred             CHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507          133 SIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      ..-.+...+...+.|+.+++  +|+++.
T Consensus       226 ~~G~~l~~~~~~~~Pi~~it--~Gq~vp  251 (270)
T PRK06731        226 SSGELLKIPAVSSAPIVLMT--DGQDVK  251 (270)
T ss_pred             CccHHHHHHHHHCcCEEEEe--CCCCCC
Confidence            23455666777788877776  565544

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=97.65  E-value=0.0041  Score=43.88  Aligned_cols=142  Identities=9%  Similarity=0.067  Sum_probs=98.7

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      +....-.|++||..+.++..|..++......           +.         ++++.-  .....-.. ....-..+|.
T Consensus        11 p~ln~atiLLVg~e~~~~~~LA~a~l~~~~~-----------~~---------l~Vh~a--~sLPLp~e-~~~lRprIDl   67 (176)
T PF11111_consen   11 PELNTATILLVGTEEALLQQLAEAMLEEDKE-----------FK---------LKVHLA--KSLPLPSE-NNNLRPRIDL   67 (176)
T ss_pred             CCcceeEEEEecccHHHHHHHHHHHHhhccc-----------ee---------EEEEEe--ccCCCccc-ccCCCceeEE
Confidence            3445678999999999999999988842210           01         111111  11010000 1112357899


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      ++|++|.....++..++.-+..+...+-. -.++++.+-....+...+...++..++..+.++++...-...++...+-+
T Consensus        68 IVFvinl~sk~SL~~ve~SL~~vd~~ffl-GKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~lAq  146 (176)
T PF11111_consen   68 IVFVINLHSKYSLQSVEASLSHVDPSFFL-GKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTSLAQ  146 (176)
T ss_pred             EEEEEecCCcccHHHHHHHHhhCChhhhc-cceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHHHHHH
Confidence            99999999988988888877777544422 34677777777767678889999999999999999998888888777777


Q ss_pred             HHHHHc
Q 028507          165 KIAAAL  170 (208)
Q Consensus       165 ~l~~~~  170 (208)
                      .|.+++
T Consensus       147 RLL~~l  152 (176)
T PF11111_consen  147 RLLRML  152 (176)
T ss_pred             HHHHHH
Confidence            776655

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.64  E-value=0.00046  Score=47.13  Aligned_cols=26  Identities=23%  Similarity=0.431  Sum_probs=21.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      .-.++++|++|+|||+|++.+...-.
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            34689999999999999999886543

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.64  E-value=5.8e-05  Score=57.73  Aligned_cols=59  Identities=20%  Similarity=0.296  Sum_probs=37.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCC------CCCCCccceeeEEEE-EEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFD------NTYQATIGIDFLSKT-MYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~------~~~~~~~~~~~~~~~-~~~~~~~~~~~i~D~~G~   68 (208)
                      ..++++.|+|-||+|||+|+|++......      ....+..  +..... +.+... -.+.++||||.
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGV--T~~V~~~iri~~r-p~vy~iDTPGi  206 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGV--TRRVSERIRISHR-PPVYLIDTPGI  206 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCc--eeeehhheEeccC-CceEEecCCCc
Confidence            45799999999999999999988744331      1222332  222222 333322 24889999993

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.61  E-value=0.00052  Score=44.55  Aligned_cols=82  Identities=11%  Similarity=0.131  Sum_probs=49.5

Q ss_pred             EEEEc-CCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           12 LVFLG-DQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        12 i~vvG-~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      |++.| ..|+||||+...+...--. ...+..       .+..+.. +.+.++|+|+....  .....+..+|.++++.+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~-~~~~vl-------~~d~d~~-~d~viiD~p~~~~~--~~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALAR-RGKRVL-------LIDLDPQ-YDYIIIDTPPSLGL--LTRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh-CCCcEE-------EEeCCCC-CCEEEEeCcCCCCH--HHHHHHHHCCEEEEecc
Confidence            56776 4589999997765422111 111111       1111111 67999999985432  23366788999999998


Q ss_pred             CCChhhHHHHHHHHH
Q 028507           91 VASRQSFLNTSKWID  105 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~  105 (208)
                      .+ ..++..+..+++
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            86 456666666655

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.57  E-value=7.7e-05  Score=54.90  Aligned_cols=68  Identities=18%  Similarity=0.183  Sum_probs=40.8

Q ss_pred             EEEEEEEcCCchhhhh-------chhhhccCCcEEEEEEeC------CChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 028507           58 VRLQLWDTAGQERFRS-------LIPSYIRDSSVAVVVYDV------ASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT  124 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-------~~~~~~~~~d~~i~v~d~------~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~  124 (208)
                      ..+.++|+||+-++..       ..+ .+..-+.-+.++..      ++|..  .+...+..+..-.....|-+=|..|+
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~-~Lek~~~rl~~V~LiDs~ycs~p~~--~iS~lL~sl~tMl~melphVNvlSK~  173 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFR-KLEKLDYRLVAVNLIDSHYCSDPSK--FISSLLVSLATMLHMELPHVNVLSKA  173 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHH-HHHHcCceEEEEEeeeceeeCChHH--HHHHHHHHHHHHHhhcccchhhhhHh
Confidence            4589999999765322       222 23345544444433      34543  34445555555555668888899999


Q ss_pred             CCCc
Q 028507          125 DLVE  128 (208)
Q Consensus       125 D~~~  128 (208)
                      |+..
T Consensus       174 Dl~~  177 (290)
T KOG1533|consen  174 DLLK  177 (290)
T ss_pred             HHHH
Confidence            9864

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.56  E-value=0.0018  Score=51.45  Aligned_cols=98  Identities=18%  Similarity=0.223  Sum_probs=52.6

Q ss_pred             EEEEEEEcCCchhhhhchhhh-------ccCCcEEEEEEeCCChhh--H-------H-------------HHH-HHHHHH
Q 028507           58 VRLQLWDTAGQERFRSLIPSY-------IRDSSVAVVVYDVASRQS--F-------L-------------NTS-KWIDEV  107 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~-------~~~~d~~i~v~d~~~~~s--~-------~-------------~~~-~~~~~i  107 (208)
                      ....++++.|......+...+       .-..+++|.|+|+.+-..  +       .             .+. .+...+
T Consensus        93 ~d~IvIEtsG~a~P~~i~~~~~~~~l~~~~~l~~vvtvVDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qi  172 (341)
T TIGR02475        93 PDHILIETSGLALPKPLVQAFQWPEIRSRVTVDGVVTVVDGPAVAAGRFAADPDALDAQRAADDNLDHETPLEELFEDQL  172 (341)
T ss_pred             CCEEEEeCCCCCCHHHHHHHhcCccccceEEeeeEEEEEECchhhhhccccchhhhhhhccccccccccchHHHHHHHHH
Confidence            457889999966654443332       125678999999963211  0       0             001 112233


Q ss_pred             HHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-cC-C-eEEEeecCCCCChHHHHH
Q 028507          108 RTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-LN-V-MFIETSAKAGFNIKPLFR  164 (208)
Q Consensus       108 ~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-~~-~-~~~~~sa~~~~~i~~~~~  164 (208)
                      .. +.     +|++||+|+.++.++  +..+...+. ++ . +++++. ........+|.
T Consensus       173 ~~-AD-----~IvlnK~Dl~~~~~l--~~~~~~l~~~~~~~a~i~~~~-~~~v~~~~ll~  223 (341)
T TIGR02475       173 AC-AD-----LVILNKADLLDAAGL--ARVRAEIAAELPRAVKIVEAS-HGEVDARVLLG  223 (341)
T ss_pred             Hh-CC-----EEEEeccccCCHHHH--HHHHHHHHHhCCCCCEEEEcc-cCCCCHHHHhC
Confidence            22 11     777899999775543  344444444 33 2 566654 33345555554

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

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.56  E-value=0.0006  Score=52.50  Aligned_cols=104  Identities=17%  Similarity=0.243  Sum_probs=62.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh----------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER----------------   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------------   70 (208)
                      .+-.+++|+|++|.|||+++++|......... ...             ..+.+..+.+|....                
T Consensus        59 ~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d-~~~-------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~  124 (302)
T PF05621_consen   59 HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSD-EDA-------------ERIPVVYVQMPPEPDERRFYSAILEALGAPY  124 (302)
T ss_pred             cCCCceEEecCCCCcHHHHHHHHHHHCCCCCC-CCC-------------ccccEEEEecCCCCChHHHHHHHHHHhCccc
Confidence            34467999999999999999999965532221 110             113455555554221                


Q ss_pred             --------hhhchhhhccCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcC-CCCcEEEEEeCC
Q 028507           71 --------FRSLIPSYIRDSSVAVVVYDVASR---QSFLNTSKWIDEVRTERG-SDVIIVLVGNKT  124 (208)
Q Consensus        71 --------~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~-~~~piivv~nK~  124 (208)
                              ........++...+=++++|--..   .+......+++.++.... ..+|++.+|++-
T Consensus       125 ~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~  190 (302)
T PF05621_consen  125 RPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTRE  190 (302)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHH
Confidence                    112223456778888999987531   234445555555554433 568899888654

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.55  E-value=0.00087  Score=42.49  Aligned_cols=76  Identities=16%  Similarity=0.216  Sum_probs=46.6

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc-hhhhccCCcEEEEEEe
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL-IPSYIRDSSVAVVVYD   90 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-~~~~~~~~d~~i~v~d   90 (208)
                      +++.|..|+||||+...+...-.... ....         .++    .+.++|+++....... .......+|.++++++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g-~~v~---------~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRG-KRVL---------LID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC-CeEE---------EEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            67889999999999887764321111 1111         111    5899999975432221 1455678899999998


Q ss_pred             CCChhhHHHHHH
Q 028507           91 VASRQSFLNTSK  102 (208)
Q Consensus        91 ~~~~~s~~~~~~  102 (208)
                      .+.. +......
T Consensus        68 ~~~~-~~~~~~~   78 (99)
T cd01983          68 PEAL-AVLGARR   78 (99)
T ss_pred             Cchh-hHHHHHH
Confidence            8743 3344333

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.53  E-value=8.2e-05  Score=58.68  Aligned_cols=58  Identities=22%  Similarity=0.348  Sum_probs=41.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      .+.+++.|+|-|++||||+||+|...+.... .+..|++.....+..+.   .+.|+|.||.
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~~~k~C~v-g~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLKRRKACNV-GNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHHHhccccC-CCCccchhhhhheeccC---CceeccCCce
Confidence            3568999999999999999999997775322 23333444455555543   5899999994

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.49  E-value=9.8e-05  Score=49.35  Aligned_cols=22  Identities=14%  Similarity=0.332  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .|+|.|++||||||+.+.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998754

...

>PRK07261 topology modulation protein; Provisional

Probab=97.47  E-value=0.0001  Score=52.67  Aligned_cols=22  Identities=18%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+|+|++|+|||||...|..
T Consensus         1 ~ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.45  E-value=0.00011  Score=52.65  Aligned_cols=23  Identities=17%  Similarity=0.517  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++|+|+|+||+||||+...|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998865

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.44  E-value=0.0012  Score=43.22  Aligned_cols=62  Identities=16%  Similarity=0.078  Sum_probs=43.6

Q ss_pred             EEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC-CCcEEEEEeC
Q 028507           59 RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS-DVIIVLVGNK  123 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~piivv~nK  123 (208)
                      .+.|+|+|+....  .....+..+|.++++.+.+ +.++..+..+++.+.....+ ...+.+|+|+
T Consensus        44 D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLDE--VSLAALDQADRVFLVTQQD-LPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCC-hHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            5899999975432  2345678899999999876 45677777777777665433 3556677775

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.43  E-value=0.00016  Score=42.10  Aligned_cols=22  Identities=14%  Similarity=0.267  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..+|.|+.|+|||||+.++..-
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~   46 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTV   46 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999987643

>PRK08118 topology modulation protein; Reviewed

Probab=97.41  E-value=0.00013  Score=51.83  Aligned_cols=23  Identities=17%  Similarity=0.431  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+|+|+|++|+|||||...|...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999988743

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.39  E-value=0.00014  Score=50.10  Aligned_cols=20  Identities=20%  Similarity=0.506  Sum_probs=18.2

Q ss_pred             EEEEcCCCCCHHHHHHHhhc
Q 028507           12 LVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~   31 (208)
                      |+++|+||+|||||++.|..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999873

...

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.38  E-value=0.00014  Score=53.80  Aligned_cols=23  Identities=13%  Similarity=0.213  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|||||||++.+-+-.
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            47899999999999999877544

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.37  E-value=0.0008  Score=53.21  Aligned_cols=45  Identities=18%  Similarity=0.189  Sum_probs=28.3

Q ss_pred             EEEEEEEEEcCCchhh-hhchhh-----hccCCcEEEEEEeCCChhhHHHH
Q 028507           56 RTVRLQLWDTAGQERF-RSLIPS-----YIRDSSVAVVVYDVASRQSFLNT  100 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~-~~~~~~-----~~~~~d~~i~v~d~~~~~s~~~~  100 (208)
                      ..+.+.|+||.|.... ..+...     -.-+.|-+|+|.|++-....+..
T Consensus       182 e~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Q  232 (483)
T KOG0780|consen  182 ENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQ  232 (483)
T ss_pred             cCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHH
Confidence            3467999999994321 122221     13468999999999865544443

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.32  E-value=0.00025  Score=51.74  Aligned_cols=25  Identities=16%  Similarity=0.205  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      =.++|+||+|+|||||++.+-+-..
T Consensus        29 evv~iiGpSGSGKSTlLRclN~LE~   53 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNGLEE   53 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCcC
Confidence            3578999999999999998876554

>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=97.30  E-value=0.0032  Score=45.21  Aligned_cols=26  Identities=15%  Similarity=0.190  Sum_probs=21.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      .=.++|+|+.|+|||||++.+.+...
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~   50 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQLI   50 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCC
Confidence            34688999999999999999887543

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.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.28  E-value=0.00028  Score=52.58  Aligned_cols=23  Identities=17%  Similarity=0.286  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999887543

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.27  E-value=0.00016  Score=51.13  Aligned_cols=22  Identities=32%  Similarity=0.546  Sum_probs=17.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ||+|+|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999855

>PRK14530 adenylate kinase; Provisional

Probab=97.24  E-value=0.0003  Score=52.17  Aligned_cols=22  Identities=18%  Similarity=0.424  Sum_probs=19.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ..+|+|+|+||+||||+.+.|.
T Consensus         3 ~~~I~i~G~pGsGKsT~~~~La   24 (215)
T PRK14530          3 QPRILLLGAPGAGKGTQSSNLA   24 (215)
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999886

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.23  E-value=0.00043  Score=51.00  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +..-|+|+|++|+|||||++.|...
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            4566788899999999999999744

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.23  E-value=0.00035  Score=41.89  Aligned_cols=21  Identities=14%  Similarity=0.419  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |++.|++|+||||+.+.|...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999988754

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.23  E-value=0.00013  Score=57.68  Aligned_cols=85  Identities=22%  Similarity=0.146  Sum_probs=51.9

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCC-CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh--hchhhhcc
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNT-YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR--SLIPSYIR   80 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--~~~~~~~~   80 (208)
                      +++-+.+.|.++|-|++|||++||+|...++... ..+..+  .....+..   -.++-++|+||.--..  +.....+ 
T Consensus       302 h~dkkqISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGET--KVWQYItL---mkrIfLIDcPGvVyps~dset~ivL-  375 (572)
T KOG2423|consen  302 HSDKKQISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGET--KVWQYITL---MKRIFLIDCPGVVYPSSDSETDIVL-  375 (572)
T ss_pred             ccCccceeeeeecCCCCchHHHHHHHhhcccccccCCCCcc--hHHHHHHH---HhceeEecCCCccCCCCCchHHHHh-
Confidence            4566789999999999999999999998877443 222211  10000000   1258899999943221  1122222 


Q ss_pred             CCcEEEEEEeCCChhh
Q 028507           81 DSSVAVVVYDVASRQS   96 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s   96 (208)
                        -++|=|=.+.+|+.
T Consensus       376 --kGvVRVenv~~pe~  389 (572)
T KOG2423|consen  376 --KGVVRVENVKNPED  389 (572)
T ss_pred             --hceeeeeecCCHHH
Confidence              36677777777653

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.18  E-value=0.0019  Score=47.23  Aligned_cols=23  Identities=13%  Similarity=0.248  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -|+|+|++|+||||+++.+....
T Consensus         3 lilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999887544

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.18  E-value=0.0019  Score=43.91  Aligned_cols=24  Identities=21%  Similarity=0.416  Sum_probs=20.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      --|++.|+.|+|||||++.+...-
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            468899999999999999988653

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>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=97.17  E-value=0.00036  Score=47.68  Aligned_cols=24  Identities=13%  Similarity=0.210  Sum_probs=20.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|+.|+|||||++.+.+..
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEccCCCccccceeeecccc
Confidence            368999999999999999888654

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 ....

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.16  E-value=0.00025  Score=50.53  Aligned_cols=25  Identities=24%  Similarity=0.511  Sum_probs=21.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      ..-++|.||+|+|||||++.|+...
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4567888999999999999998665

>PRK01889 GTPase RsgA; Reviewed

Probab=97.15  E-value=0.00047  Score=55.05  Aligned_cols=24  Identities=21%  Similarity=0.560  Sum_probs=21.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -+++|+|.+|+|||||+|.|.+..
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhc
Confidence            479999999999999999998644

>PRK06217 hypothetical protein; Validated

Probab=97.14  E-value=0.00041  Score=50.09  Aligned_cols=23  Identities=13%  Similarity=0.237  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+|+|+|.+|+|||||..+|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988743

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.13  E-value=0.00042  Score=45.20  Aligned_cols=21  Identities=24%  Similarity=0.544  Sum_probs=18.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      -.++++|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            458999999999999999875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK03839 putative kinase; Provisional

Probab=97.12  E-value=0.00043  Score=49.78  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++|+|+|+||+||||+.+.|...
T Consensus         1 m~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          1 MIIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999988643

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.11  E-value=0.00045  Score=49.98  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|++|+|||||++.|...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6899999999999999999654

>PRK04195 replication factor C large subunit; Provisional

Probab=97.11  E-value=0.011  Score=49.34  Aligned_cols=24  Identities=33%  Similarity=0.458  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -.++|.|++|+||||+++.+....
T Consensus        40 ~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         40 KALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            458889999999999999987543

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.09  E-value=0.00049  Score=47.24  Aligned_cols=21  Identities=29%  Similarity=0.699  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+|+|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999854

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.08  E-value=0.00054  Score=46.36  Aligned_cols=26  Identities=15%  Similarity=0.224  Sum_probs=22.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD   35 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~   35 (208)
                      -.++|+|++|+||||++..+...-..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC
Confidence            46899999999999999998865543

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=97.07  E-value=0.00051  Score=48.93  Aligned_cols=25  Identities=16%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .=.++|+|++|+|||||+|-+.+=.
T Consensus        25 ge~vAi~GpSGaGKSTLLnLIAGF~   49 (231)
T COG3840          25 GEIVAILGPSGAGKSTLLNLIAGFE   49 (231)
T ss_pred             CcEEEEECCCCccHHHHHHHHHhcc
Confidence            3468999999999999999877543

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.04  E-value=0.00053  Score=49.23  Aligned_cols=22  Identities=14%  Similarity=0.255  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|++|+|||||++.|...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988654

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.04  E-value=0.0006  Score=46.02  Aligned_cols=21  Identities=19%  Similarity=0.360  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999988754

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK08233 hypothetical protein; Provisional

Probab=97.04  E-value=0.0007  Score=48.58  Aligned_cols=25  Identities=16%  Similarity=0.179  Sum_probs=21.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +.+-|+|.|++|+|||||.+.|...
T Consensus         2 ~~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          2 KTKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhh
Confidence            3467888999999999999988753

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.03  E-value=0.0006  Score=46.97  Aligned_cols=22  Identities=23%  Similarity=0.557  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .|+|+|+.|+|||||+..|+..
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINE   23 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988754

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.02  E-value=0.00056  Score=50.63  Aligned_cols=21  Identities=14%  Similarity=0.393  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|+++|++|+|||||++.+.+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            479999999999999998876

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.01  E-value=0.00085  Score=47.78  Aligned_cols=24  Identities=17%  Similarity=0.221  Sum_probs=20.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..-+.|+|++|+|||||+.++...
T Consensus         6 ~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          6 IPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             ceEEEEECCCCChHHHHHHHHHHH
Confidence            346899999999999999998854

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.01  E-value=0.00067  Score=48.64  Aligned_cols=22  Identities=18%  Similarity=0.336  Sum_probs=19.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      .-.++|+|+.|+|||||++.++
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            3578999999999999999886

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.01  E-value=0.00073  Score=53.12  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      ++++||+|+|||||++.+.+-.-
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe~   54 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLEE   54 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            78999999999999999886543

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=97.00  E-value=0.011  Score=45.88  Aligned_cols=20  Identities=15%  Similarity=0.275  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      .|+|.|++|+||||+++.|.
T Consensus         8 ~i~i~G~~GsGKtt~~~~l~   27 (288)
T PRK05416          8 LVIVTGLSGAGKSVALRALE   27 (288)
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            68889999999999999984

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.00  E-value=0.00088  Score=49.39  Aligned_cols=26  Identities=15%  Similarity=0.231  Sum_probs=22.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+...|+|.|++|+|||||.+.|...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35689999999999999999988754

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.00  E-value=0.00062  Score=45.74  Aligned_cols=21  Identities=24%  Similarity=0.259  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+|.|.+||||||+.+.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999988754

...

>TIGR00235 udk uridine kinase

Probab=96.98  E-value=0.00093  Score=49.20  Aligned_cols=25  Identities=16%  Similarity=0.211  Sum_probs=21.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +..-|+|+|++|+|||||++.|.+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            3467899999999999999998753

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.96  E-value=0.00071  Score=48.55  Aligned_cols=22  Identities=23%  Similarity=0.545  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -|+|+|++|+|||||++.|...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4889999999999999999864

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=96.95  E-value=0.04  Score=39.21  Aligned_cols=84  Identities=12%  Similarity=0.005  Sum_probs=50.6

Q ss_pred             EEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHH
Q 028507           59 RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGE  138 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~  138 (208)
                      .+.|+|+|+....  .....+..+|.+|++.+.+. .++..+..+++.+...  ......+|+|+.+.....  ......
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~~~~~--~~~~~~iv~N~~~~~~~~--~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDADRVKGLLEAL--GIKVVGVIVNRVRPDMVE--GGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHHHHHHHHHHHc--CCceEEEEEeCCcccccc--hhhHHH
Confidence            5999999875432  23445688999999998864 4555555655555542  123467788999853322  122223


Q ss_pred             HHHHhcCCeEE
Q 028507          139 AKSRELNVMFI  149 (208)
Q Consensus       139 ~~~~~~~~~~~  149 (208)
                      .+...++.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            44445566554

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>PRK14532 adenylate kinase; Provisional

Probab=96.94  E-value=0.00078  Score=48.77  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+++|+||+||||+..+|..
T Consensus         1 ~~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          1 MNLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998863

>PRK00625 shikimate kinase; Provisional

Probab=96.94  E-value=0.00078  Score=48.14  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+++|.+|+||||+.+.|..
T Consensus         1 ~~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          1 MQIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998853

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.94  E-value=0.00075  Score=47.52  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      ++|+|.|.||+||||+...|.
T Consensus         1 m~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           1 MLIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             CeEEEeCCCCCchHHHHHHHH
Confidence            589999999999999999887

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.94  E-value=0.0094  Score=49.97  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      +++.||+|+||||.++.|...
T Consensus        48 LlLtGP~G~GKtttv~~La~e   68 (519)
T PF03215_consen   48 LLLTGPSGCGKTTTVKVLAKE   68 (519)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            455699999999999988743

>PRK10646 ADP-binding protein; Provisional

Probab=96.93  E-value=0.0073  Score=42.09  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -|++-|+-|+|||||++.+...
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~   51 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQA   51 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4788899999999999998754

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.93  E-value=0.00075  Score=48.68  Aligned_cols=21  Identities=14%  Similarity=0.316  Sum_probs=18.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      .-|+|+|++|+||||+.+.|.
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            468889999999999999887

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.92  E-value=0.0032  Score=42.18  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -|++-|+-|+|||||++.+...
T Consensus        17 vi~L~GdLGaGKTtf~r~l~~~   38 (123)
T PF02367_consen   17 VILLSGDLGAGKTTFVRGLARA   38 (123)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4778899999999999988754

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.90  E-value=0.00092  Score=48.40  Aligned_cols=25  Identities=16%  Similarity=0.352  Sum_probs=21.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .-.++|+|++|+|||||++.|.+..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            4578999999999999999988643

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.90  E-value=0.00085  Score=48.56  Aligned_cols=23  Identities=17%  Similarity=0.280  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .=|+|+|++|+|||||+++|...
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            45889999999999999999864

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.89  E-value=0.00099  Score=49.93  Aligned_cols=24  Identities=29%  Similarity=0.753  Sum_probs=21.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++++|+|++|+|||+|+-.|+..
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh
Confidence            479999999999999999888754

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK02496 adk adenylate kinase; Provisional

Probab=96.89  E-value=0.001  Score=48.03  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+|+|+||+||||+...|..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998864

>PRK08727 hypothetical protein; Validated

Probab=96.88  E-value=0.012  Score=44.28  Aligned_cols=21  Identities=24%  Similarity=0.314  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      +.+.|++|+|||.|+..+...
T Consensus        44 l~l~G~~G~GKThL~~a~~~~   64 (233)
T PRK08727         44 LYLSGPAGTGKTHLALALCAA   64 (233)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988644

>PRK14531 adenylate kinase; Provisional

Probab=96.88  E-value=0.001  Score=48.05  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+|+++|+||+||||+...|..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999988863

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.87  E-value=0.00089  Score=48.89  Aligned_cols=21  Identities=19%  Similarity=0.378  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |.|.|++|+|||||.+.|...
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999988754

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>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=96.86  E-value=0.00099  Score=49.39  Aligned_cols=24  Identities=13%  Similarity=0.164  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|+.|+|||||++.+.+..
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCc
Confidence            357899999999999999998754

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.

>PRK13949 shikimate kinase; Provisional

Probab=96.86  E-value=0.001  Score=47.40  Aligned_cols=21  Identities=19%  Similarity=0.379  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      +|+|+|++|+||||+...|..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999987763

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.86  E-value=0.00091  Score=48.88  Aligned_cols=21  Identities=14%  Similarity=0.352  Sum_probs=17.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      --.+++||+|+|||||++.|-
T Consensus        34 ~VTAlIGPSGcGKST~LR~lN   54 (253)
T COG1117          34 KVTALIGPSGCGKSTLLRCLN   54 (253)
T ss_pred             ceEEEECCCCcCHHHHHHHHH
Confidence            346899999999999998775

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.85  E-value=0.0059  Score=48.49  Aligned_cols=25  Identities=16%  Similarity=0.372  Sum_probs=22.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      ..+|+|.|+.|+|||||++.|+..-
T Consensus       162 ~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        162 RLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             CCeEEEECCCCccHHHHHHHHHccc
Confidence            5789999999999999999998654

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.85  E-value=0.001  Score=49.22  Aligned_cols=24  Identities=13%  Similarity=0.293  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|+.|+|||||++.+.+..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999998754

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.84  E-value=0.0011  Score=48.97  Aligned_cols=24  Identities=13%  Similarity=0.170  Sum_probs=20.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|+.|+|||||++.+.+..
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            357899999999999999998754

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.84  E-value=0.0028  Score=47.20  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-.++|.|++|+|||+|...+...
T Consensus        38 ~~~lll~G~~G~GKT~la~~~~~~   61 (226)
T TIGR03420        38 DRFLYLWGESGSGKSHLLQAACAA   61 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999988754

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.83  E-value=0.0011  Score=49.60  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=20.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .++|+|+|+||+||||+...|..
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            37899999999999999998753

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	208
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-77
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		5e-77
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		1e-76
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		1e-74
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		3e-74
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		9e-72
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		6e-70
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		1e-58
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		3e-34
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-33
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-33
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		4e-33
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		4e-33
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		4e-33
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		4e-33
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		5e-33
2efc_B	181	Ara7-GdpATVPS9A Length = 181		6e-33
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		6e-33
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		8e-33
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		1e-32
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-32
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-32
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		2e-32
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		5e-32
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-31
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		5e-31
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		6e-31
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-30
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-29
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-29
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-29
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-29
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		3e-29
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		5e-29
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		8e-29
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		9e-29
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		2e-28
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		2e-28
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-28
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		3e-28
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		3e-28
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-28
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		4e-28
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		5e-28
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		6e-28
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		6e-28
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		6e-28
4fmc_B	171	Espg-Rab1 Complex Length = 171		6e-28
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		6e-28
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		1e-27
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		1e-27
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		2e-27
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		3e-27
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		3e-27
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		3e-27
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		3e-27
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		7e-27
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		8e-27
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		9e-27
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		1e-26
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		1e-26
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		1e-26
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		2e-26
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-26
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		3e-26
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		3e-26
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		3e-26
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		5e-26
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		5e-26
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		7e-26
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		8e-26
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		8e-26
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-25
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		1e-25
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		2e-25
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		4e-25
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		5e-25
1vg1_A	185	Gdp-bound Rab7 Length = 185		6e-25
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		8e-25
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		1e-24
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-24
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		3e-24
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		4e-24
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		4e-24
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		4e-24
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		8e-24
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		1e-23
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		1e-23
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-23
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		3e-22
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		9e-22
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-21
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-21
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		3e-21
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		3e-21
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		3e-21
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		3e-21
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		4e-21
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		4e-21
4fmc_F	117	Espg-Rab1 Complex Length = 117		5e-21
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		8e-21
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		8e-21
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		9e-21
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		1e-20
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		3e-20
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		1e-19
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		5e-19
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		2e-18
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		4e-16
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		1e-15
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		2e-15
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		2e-15
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-15
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-15
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		2e-15
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		2e-15
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		3e-15
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		4e-15
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		5e-15
3icq_B	171	Karyopherin Nuclear State Length = 171		5e-15
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		5e-15
1byu_A	216	Canine Gdp-Ran Length = 216		7e-15
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		8e-15
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		8e-15
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		8e-15
2bku_A	177	Kap95p:rangtp Complex Length = 177		9e-15
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		1e-14
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		1e-14
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		2e-14
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		2e-14
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		2e-14
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-14
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		2e-14
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		2e-14
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		2e-14
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		3e-14
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		4e-14
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		4e-14
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		5e-14
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		8e-14
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		9e-14
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-13
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		1e-13
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-13
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		2e-13
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		3e-13
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		3e-13
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		4e-13
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		5e-13
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		1e-12
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		1e-12
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		2e-12
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		4e-12
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		4e-12
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		5e-12
1mh1_A	186	Small G-Protein Length = 186		5e-12
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		5e-12
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		6e-12
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		7e-12
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		1e-11
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		1e-11
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		1e-11
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		1e-11
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		1e-11
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		1e-11
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		1e-11
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		1e-11
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		1e-11
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		1e-11
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		1e-11
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		1e-11
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		1e-11
1s1c_A	183	Crystal Structure Of The Complex Between The Human		1e-11
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		1e-11
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		2e-11
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		2e-11
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		2e-11
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		2e-11
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		2e-11
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		2e-11
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		2e-11
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		2e-11
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		2e-11
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		2e-11
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		2e-11
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-11
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		2e-11
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		5e-11
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		5e-11
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		6e-11
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		7e-11
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		7e-11
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		7e-11
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		8e-11
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		8e-11
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		8e-11
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		9e-11
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		9e-11
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		1e-10
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		2e-10
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		2e-10
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		2e-10
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		2e-10
4q21_A	189	Molecular Switch For Signal Transduction: Structura		2e-10
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-10
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-10
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		2e-10
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		2e-10
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		3e-10
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		3e-10
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		3e-10
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		3e-10
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		3e-10
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		3e-10
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		4e-10
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		4e-10
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		5e-10
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		5e-10
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		5e-10
1wq1_R	166	Ras-Rasgap Complex Length = 166		5e-10
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		5e-10
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		5e-10
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		5e-10
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		5e-10
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		6e-10
6q21_A	171	Molecular Switch For Signal Transduction: Structura		6e-10
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		6e-10
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		7e-10
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		7e-10
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		7e-10
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		7e-10
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		8e-10
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		8e-10
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		9e-10
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		9e-10
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		1e-09
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		1e-09
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		1e-09
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		1e-09
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-09
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		2e-09
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-09
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		2e-09
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		2e-09
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		2e-09
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-09
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		2e-09
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		2e-09
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		2e-09
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		2e-09
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		2e-09
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		2e-09
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		2e-09
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		3e-09
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		3e-09
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		3e-09
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		3e-09
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		3e-09
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		3e-09
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		3e-09
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		3e-09
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		3e-09
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		3e-09
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		3e-09
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		3e-09
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		3e-09
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		4e-09
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		4e-09
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		4e-09
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		4e-09
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		4e-09
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-09
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		5e-09
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		5e-09
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		6e-09
2kb0_A	178	Cdc42(T35a) Length = 178		1e-08
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		1e-08
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		1e-08
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		2e-08
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		2e-08
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		2e-08
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		3e-08
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		3e-08
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		1e-07
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		1e-07
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		1e-07
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		5e-06
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		6e-06
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		6e-06
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		4e-05
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		4e-05
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		7e-05
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		1e-04
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		1e-04
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		3e-04
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		6e-04
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		7e-04

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  285 bits (728), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 139/204 (68%), Positives = 159/204 (77%), Gaps = 4/204 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWD
Sbjct: 9   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWD 68
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAG ERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 69  TAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 128
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 129 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 188
Query: 185 VDVNLRSTTGNAXXXXXXXXGCSC 208
           +D+ L               GCSC
Sbjct: 189 IDIKLE----KPQEQPVSEGGCSC 208

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  283 bits (724), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 136/185 (73%), Positives = 155/185 (83%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 2   NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 61
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAG ERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 62  TAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 121
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 122 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 181
Query: 185 VDVNL 189
           +D+ L
Sbjct: 182 IDIKL 186

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  281 bits (720), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 136/185 (73%), Positives = 155/185 (83%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 12  NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 71
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAG ERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 72  TAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 131
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 132 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 191
Query: 185 VDVNL 189
           +D+ L
Sbjct: 192 IDIKL 196

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  275 bits (703), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 132/169 (78%), Positives = 146/169 (86%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWD
Sbjct: 2   SPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWD 61
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 62  TAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 121
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGM 173
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGM
Sbjct: 122 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM 170

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  274 bits (700), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 132/170 (77%), Positives = 146/170 (85%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 10  NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 69
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERFRSLIPSYIR               SF  TSKWID+VRTERGSDVII+LVGNKT
Sbjct: 70  TAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKT 129
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
           DL +KRQVS EEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGM+
Sbjct: 130 DLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMD 179

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score =  265 bits (678), Expect = 9e-72,   Method: Compositional matrix adjust.
 Identities = 128/162 (79%), Positives = 141/162 (87%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ
Sbjct: 1   KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 60
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ERFRSLIPSYIR               SF  T+KWID+VRTERGSDVII+LVGNKTDL +
Sbjct: 61  ERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLAD 120
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAAL
Sbjct: 121 KRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 162

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  259 bits (663), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 123/163 (75%), Positives = 140/163 (85%)
Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
            K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG
Sbjct: 1   GKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 60
Query: 68  QERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV 127
           QERFRSLIPSYIR               SF  TSKWID+VRTERGSDVII+LVGNKTDL 
Sbjct: 61  QERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLA 120
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           +KRQ++IEEGE +++EL+VMFIETSAK G+N+K LFR++A+AL
Sbjct: 121 DKRQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASAL 163

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  222 bits (565), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 109/162 (67%), Positives = 125/162 (77%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           KYKLVFLG+Q+VGKTSIITRF YD FDN YQ+TIGIDFLSKT+YL++  VRLQLWDTAGQ
Sbjct: 1   KYKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQ 60
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ERFRSLIPSYIR             RQSF NT+KWI ++  ERG DVII LVGNKTDL +
Sbjct: 61  ERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGD 120
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            R+V+ EEG  K++E N  F ETSAKAG NIK LF+K A+ L
Sbjct: 121 LRKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFKKTASKL 162

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 103/171 (60%)
Query: 4   VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 63
            S + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++++ L+D TV+ ++W
Sbjct: 3   ASKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIW 62
Query: 64  DTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNK 123
           DTAGQER+ SL P Y R             +++F     W+ E++ +    ++I L GNK
Sbjct: 63  DTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNK 122
Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
            DL  KR V  EE +A + + +++F+ETSAK   N+  LF  IA  LP  E
Sbjct: 123 ADLANKRMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLFLAIAKKLPKSE 173

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  138 bits (348), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 101/165 (61%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 5   ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 64
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 65  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 124
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 125 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 169

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  138 bits (347), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 101/165 (61%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 4   ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 63
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 64  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 100/165 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+  VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 4   ICQFKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 63
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 64  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 100/165 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+  VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 4   ICQFKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 63
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 64  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 100/165 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 5   ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 64
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 65  GQERYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 124
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F ETSAK   N+  +F  IA  LP
Sbjct: 125 ANKRAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAIAKKLP 169

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 100/165 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+  VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 4   ICQFKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 63
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 64  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  137 bits (344), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 100/165 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+  VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 4   ICQFKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 63
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 64  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  137 bits (344), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 63/161 (39%), Positives = 100/161 (62%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV LGD   GK+S++ RF+ D+F    ++TIG  F S+T+ + D TV+ ++WDTAGQER
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           + SL P Y R             + SF    KW+ E++ +   ++++ L GNK+DL++ R
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR 133
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           +V+ E+ +  ++E  + F+ETSAK   N+K +F +IA  LP
Sbjct: 134 KVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLP 174

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  137 bits (344), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 100/165 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+  VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 4   ICQFKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 63
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 64  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  136 bits (343), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 67/162 (41%), Positives = 102/162 (62%), Gaps = 1/162 (0%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD SVGKT ++ RF    F     +TIG+DF  KT+ ++ + V+LQ+WDTAGQE
Sbjct: 30  FKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQE 89
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             R SFL+   WI++VR   GS+++ +L+GNK+DL E 
Sbjct: 90  RFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL 149
Query: 130 RQVSIEEGEAKSRELNVMF-IETSAKAGFNIKPLFRKIAAAL 170
           R+VS+ E ++ +   +++  IETSAK   N++  F ++A  L
Sbjct: 150 REVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATEL 191

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  135 bits (340), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 61/166 (36%), Positives = 100/166 (60%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++ ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDT
Sbjct: 2   SICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDT 61
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD 125
           AG ER+ SL P Y R               +F     W+ E++ +   +++I L GNK D
Sbjct: 62  AGLERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKAD 121
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           L  KR V  +E +A + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 122 LASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKLP 167

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  135 bits (340), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 67/162 (41%), Positives = 99/162 (61%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D + ++Y +TIG+DF  +T+ LE++TV+LQ+WDTAGQE
Sbjct: 10  FKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQE 69
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             R SF N  +WI E+      +V  +LVGNK DLV K
Sbjct: 70  RFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSK 129
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           R V+ +EG   +    + FIETSAK  +N++  F  +A  + 
Sbjct: 130 RVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGEIK 171

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  135 bits (339), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 100/165 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 3   ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 62
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           G ER+ SL P Y R              +SF     W+ E++ +   +++I L GNK DL
Sbjct: 63  GLERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 122
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 123 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 167

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  135 bits (339), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 61/164 (37%), Positives = 99/164 (60%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 1   ICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTA 60
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R               +F     W+ E++ +   +++I L GNK DL
Sbjct: 61  GQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADL 120
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
             KR V  +E +A + + +++F+ETSAK   N+  +F  IA  L
Sbjct: 121 ASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 164

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  134 bits (336), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 66/164 (40%), Positives = 97/164 (59%), Gaps = 3/164 (1%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV LG+ +VGK+SI+ RF+ + F    + TIG  FL++ + + + TV+ ++WDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE-- 128
           F SL P Y R              QSF+    W+ E+  +   D+II LVGNK D ++  
Sbjct: 65  FASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEG 124
Query: 129 -KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
            +R+V+ EEGE  + E  ++F ETSAK G N+  +F  I   +P
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIP 168

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 99/165 (60%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++ ++KLV LG+ +VGK+S++ RF+  +F    ++TI   FL++T+ L+D TV+ ++WDT
Sbjct: 2   SICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDT 61
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD 125
           AGQER+ SL P Y R               +F     W+ E++ +   +++I L GNK D
Sbjct: 62  AGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKAD 121
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           L  KR V  +E +A + + +++F+ETSAK   N+  +F  IA  L
Sbjct: 122 LASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  130 bits (327), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 98/158 (62%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGKT ++ RF  D F++T+ +TIGIDF  +T+ L+ + ++LQ+WDTAGQE
Sbjct: 9   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R              +SF N   WI  +     +DV  +++GNK D+ +K
Sbjct: 69  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           RQVS E GE  + +  + F+ETSAKA  N++  F  +A
Sbjct: 129 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLA 166

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  130 bits (326), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 98/158 (62%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGKT ++ RF  D F++T+ +TIGIDF  +T+ L+ + ++LQ+WDTAGQE
Sbjct: 7   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 66
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R              +SF N   WI  +     +DV  +++GNK D+ +K
Sbjct: 67  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 126
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           RQVS E GE  + +  + F+ETSAKA  N++  F  +A
Sbjct: 127 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLA 164

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  129 bits (324), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 59/170 (34%), Positives = 97/170 (57%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           SA+ + K+  LGD  VGK+SI+ RF+ D FD+    TIG  F++KT+   +   +  +WD
Sbjct: 19  SAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWD 78
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQERF SL P Y R             + SF    KW+ E++     ++++ + GNK 
Sbjct: 79  TAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKC 138
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
           DL + R+V +++ +  +  +  + +ETSAK   NI+ LF+ I+  +P ++
Sbjct: 139 DLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLD 188

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  125 bits (315), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 60/169 (35%), Positives = 102/169 (60%), Gaps = 8/169 (4%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   +F   +  TIG++F ++ + ++ + ++LQ+WDTAGQE
Sbjct: 22  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE 81
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            FRS+  SY R             R++F + + W+++ R    S+++I+L+GNK+DL  +
Sbjct: 82  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR 141
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNI--------KPLFRKIAAAL 170
           R V  EEGEA +RE  ++F+ETSAK   N+        K ++RKI   L
Sbjct: 142 RDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 190

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  125 bits (313), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 68/177 (38%), Positives = 100/177 (56%), Gaps = 5/177 (2%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +G+  VGKT ++ RF    F     ATIG+DF+ KT+ +    V+LQ+WDTAGQE
Sbjct: 27  FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE 86
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R              +SF    +W+ E+     + VI VLVGNK DL E+
Sbjct: 87  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 146
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
           R+VS +  E  S   ++ ++ETSAK   N++ LF  +A  L     +S  +Q  +V+
Sbjct: 147 REVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL-----ISEARQNTLVN 198

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  125 bits (313), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 56/154 (36%), Positives = 97/154 (62%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   +F   +  TIG++F ++ + ++ + ++LQ+WDTAGQE
Sbjct: 11  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQE 70
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            FRS+  SY R             R +F + + W+++ R    S+++I+L+GNK+DL  +
Sbjct: 71  SFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLESR 130
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           R+V  EEGEA +RE  ++F+ETSAK   N++  F
Sbjct: 131 REVKKEEGEAFAREHGLIFMETSAKTASNVEEAF 164

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  125 bits (313), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 62/157 (39%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQLWDTAGQER
Sbjct: 22  KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQER 81
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           FR++  +Y R              ++F N  +W   V      +  ++LVGNK+D+ E R
Sbjct: 82  FRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETR 140
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            V+ ++GEA ++EL + FIE+SAK   N+  +F  +A
Sbjct: 141 VVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA 177

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  124 bits (312), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 62/157 (39%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQLWDTAGQER
Sbjct: 9   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQER 68
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           FR++  +Y R              ++F N  +W   V      +  ++LVGNK+D+ E R
Sbjct: 69  FRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETR 127
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            V+ ++GEA ++EL + FIE+SAK   N+  +F  +A
Sbjct: 128 VVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA 164

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  124 bits (310), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 96/166 (57%)
Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           + P  +   +KL+ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  D+ ++L
Sbjct: 14  LVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKL 73
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           Q+WDTAGQER+R++  +Y R             ++SF     W  +++T    +  ++LV
Sbjct: 74  QIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILV 133
Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           GNK DL ++R V  E+G   + +L   F E SAK   N+K +F ++
Sbjct: 134 GNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERL 179

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  123 bits (308), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 61/157 (38%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQ+WDTAGQER
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQER 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           FR++  +Y R              ++F N  +W   V      +  ++LVGNK+D+ E R
Sbjct: 65  FRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETR 123
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            V+ ++GEA ++EL + FIE+SAK   N+  +F  +A
Sbjct: 124 VVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA 160

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  123 bits (308), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 63/157 (40%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQLWDTAGQER
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQER 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           FR++  +Y R              ++F N  +W   V      +  ++LVGNK+D  E R
Sbjct: 65  FRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD-XETR 123
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            V+ ++GEA ++EL + FIE+SAK   N+  +F  +A
Sbjct: 124 VVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA 160

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 63/162 (38%), Positives = 93/162 (57%), Gaps = 1/162 (0%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +K++ +GD  VGKT ++ RF    F   T+ +T+GIDF +K + ++   V+LQ+WDTAGQ
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 70
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ERFRS+  +Y R             + SF N   W+ E+      DV ++L+GNK D   
Sbjct: 71  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH 130
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           +R V  E+GE  ++E  + F+ETSAK G N+   F  IA  L
Sbjct: 131 ERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  121 bits (304), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 62/157 (39%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQ+WDTAGQER
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQER 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           FR++  +Y R              ++F N  +W   V      +  ++LVGNK+D  E R
Sbjct: 65  FRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD-XETR 123
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            V+ ++GEA ++EL + FIE+SAK   N+  +F  +A
Sbjct: 124 VVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA 160

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  121 bits (304), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 62/170 (36%), Positives = 100/170 (58%), Gaps = 3/170 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 10  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 69
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++S+ N  +W+ E+      +V  +LVGNK+DL  K
Sbjct: 70  RFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTK 129
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP---GMETL 176
           + V     +  +  L + F+ETSAK   N++  F  +AA +    G+E L
Sbjct: 130 KVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMGLEVL 179

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  121 bits (304), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 92/166 (55%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           +L + K+  LGD  VGK+SI+ RF+ D FD     TIG  F++KT+  ++   +  +WDT
Sbjct: 2   SLRELKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDT 61
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD 125
           AGQERFR+L P Y R              ++F     W+ E+R      +++ + GNK D
Sbjct: 62  AGQERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCD 121
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           L + R+V   + +  +  ++ +F+ETSAK   NI  LF +I+  +P
Sbjct: 122 LTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 167

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  121 bits (303), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 61/163 (37%), Positives = 96/163 (58%)
Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           A +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAG
Sbjct: 5   ALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 64
Query: 68  QERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV 127
           QERFR++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL 
Sbjct: 65  QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 124
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            K+ V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 125 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  121 bits (303), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 60/161 (37%), Positives = 95/161 (59%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 17  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 76
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL  K
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 137 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score =  120 bits (302), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 59/167 (35%), Positives = 92/167 (55%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           SAL + K+  LGD  VGK+SI+ RF+ D FD     TIG  F++KT+  ++   +  +WD
Sbjct: 2   SALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWD 61
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAG ERFR+L P Y R              ++F     W+ E+R      +++ + GNK 
Sbjct: 62  TAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKC 121
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           DL + R+V   + +  +  ++ +F+ETSAK   NI  LF +I+  +P
Sbjct: 122 DLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 168

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  120 bits (301), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 60/161 (37%), Positives = 95/161 (59%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 26  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 85
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL  K
Sbjct: 86  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 145
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 146 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 186

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  120 bits (301), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 59/161 (36%), Positives = 96/161 (59%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 10  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 69
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++S+ N  +W+ E+      +V  +LVGNK+DL  K
Sbjct: 70  RFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTK 129
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 130 KVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  120 bits (301), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 58/187 (31%), Positives = 106/187 (56%), Gaps = 6/187 (3%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++T+ +E + ++ Q+WDTAGQE
Sbjct: 14  FKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQE 73
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               S+ N + W+ E+R     +V + L+GNK+DL   
Sbjct: 74  RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHL 133
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNL 189
           R V  EE +  ++E  ++F ETSA    N+   F ++      + T+     +  +D+  
Sbjct: 134 RAVPTEESKTFAQENQLLFTETSALNSENVDKAFEEL------INTIYQKVSKHQMDLGD 187
Query: 190 RSTTGNA 196
            S  GNA
Sbjct: 188 SSANGNA 194

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  120 bits (301), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 60/161 (37%), Positives = 94/161 (58%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK  ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 17  FKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 76
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL  K
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 137 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  120 bits (300), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 60/161 (37%), Positives = 95/161 (59%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 7   FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 66
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL  K
Sbjct: 67  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 126
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 127 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  120 bits (300), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 54/157 (34%), Positives = 99/157 (63%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAGQE
Sbjct: 6   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 65
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R +  +Y R               ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 66  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 125
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  +E  A + + N+ FIETSA    N++  F+ I
Sbjct: 126 RAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI 162

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  119 bits (299), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/161 (37%), Positives = 94/161 (58%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 34  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 93
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL  K
Sbjct: 94  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 153
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F   AA +
Sbjct: 154 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEI 194

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  119 bits (298), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/160 (37%), Positives = 94/160 (58%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           FR++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL  K+
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 120
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 121 VVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 160

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  118 bits (295), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 57/161 (35%), Positives = 94/161 (58%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  ++ V+LQ+WDTAGQE
Sbjct: 24  FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQE 83
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R              +SF     W  +++T    +  ++LVGNK D+ E+
Sbjct: 84  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE 143
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V  E+G+  + +L   F E SAK   +++  F ++  A+
Sbjct: 144 RVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAI 184

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  117 bits (294), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 53/157 (33%), Positives = 99/157 (63%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAGQE
Sbjct: 21  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 80
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 81  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 140
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  +E  A + +  + FIETSA    N++  F+ I
Sbjct: 141 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 177

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  117 bits (294), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 53/157 (33%), Positives = 99/157 (63%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAGQE
Sbjct: 30  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 89
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 90  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  +E  A + +  + FIETSA    N++  F+ I
Sbjct: 150 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  117 bits (294), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 110/204 (53%), Gaps = 11/204 (5%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+  VGK+ ++ RF  D + N Y +TIG+DF  KT+ L+ +TV+LQ+WDTAGQE
Sbjct: 9   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF     W+ E+     S V+ +LVGNK DL +K
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP---GMETLSST--KQEEM 184
           R V  +  +  +    + F+ETSA    N++  F  +A  +      + L+ T  K+E+ 
Sbjct: 129 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDK 188
Query: 185 VDVNLRSTTGNAXXXXXXXXGCSC 208
            +VNL+  +           GC C
Sbjct: 189 GNVNLKGQS------LTNTGGCCC 206

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  117 bits (294), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 57/154 (37%), Positives = 88/154 (57%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V LG+  VGKTS++ R+  +KF++ +  T+G  FL+K + +  + V L +WDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQE 66
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RF +L P Y R               SF     W+ E+R   G+++ + +VGNK DL ++
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           R VSI+E E+ +  +      TSAK    I+ LF
Sbjct: 127 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  116 bits (291), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 59/161 (36%), Positives = 94/161 (58%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 9   FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF N  +W+ E+      +V  +LVG K DL  K
Sbjct: 69  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTTK 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 129 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 169

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  116 bits (291), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 57/157 (36%), Positives = 91/157 (57%), Gaps = 1/157 (0%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+S++ RF  + F  +Y  TIG+DF  +T+ +    V+LQ+WDTAGQE
Sbjct: 10  FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQE 69
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R              +SF+N  +W+ E+  +   DV  +LVGNK D  E+
Sbjct: 70  RFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEI-NQNCDDVCRILVGNKNDDPER 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           + V  E+    + ++ +   ETSAK   N++ +F  I
Sbjct: 129 KVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCI 165

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  116 bits (290), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 57/161 (35%), Positives = 91/161 (56%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  D+ ++LQ+WDTAGQE
Sbjct: 6   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQE 65
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R              +SF     W  +++T    +  ++LVGNK D+ ++
Sbjct: 66  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 125
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R VS E G   +  L   F E SAK   N+K  F ++   +
Sbjct: 126 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVI 166

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  116 bits (290), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 67/186 (36%), Positives = 106/186 (56%), Gaps = 5/186 (2%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+  VGK+ ++ RF  D + N Y +TIG+DF  KT+ L+ +TV+LQ+WDTAGQE
Sbjct: 9   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF     W+ E+     S V+ +LVGNK DL +K
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP---GMETLSST--KQEEM 184
           R V  +  +  +    + F+ETSA    N++  F  +A  +      + L+ T  K+E+ 
Sbjct: 129 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDK 188
Query: 185 VDVNLR 190
            +VNL+
Sbjct: 189 GNVNLK 194

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  116 bits (290), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 54/164 (32%), Positives = 98/164 (59%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  D+F+   ++TIG++F ++T+ +E++ ++ Q+WDTAG E
Sbjct: 11  FKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGLE 70
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               S+ N + W+ E+R     +V + L+GNK+DL   
Sbjct: 71  RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAHL 130
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGM 173
           R V  +E +  + E  ++F ETSA    N+   FR++  A+  M
Sbjct: 131 RAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAIFQM 174

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  115 bits (289), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 100/158 (63%), Gaps = 1/158 (0%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQ 68
           +K+V +GD  VGK+++++RF  D+F+   ++TIG++F +K++ L++ + ++ Q+WDTAGQ
Sbjct: 8   FKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAGQ 67
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ER+R++  +Y R             + SF N  KW+ E+R    S+++I+LVGNK+DL  
Sbjct: 68  ERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDLKH 127
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
            R ++  +    +++  + FIETSA    N++  F ++
Sbjct: 128 LRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQL 165

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/158 (34%), Positives = 94/158 (59%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G    GK+ ++ +F+ +KF      TIG++F S+ + +  +TV+LQ+WDTAGQE
Sbjct: 26  FKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQE 85
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R             R+++ + + W+ + RT    +++++L GNK DL  +
Sbjct: 86  RFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPE 145
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R+V+  E    ++E  +MF+ETSA  G N++  F K A
Sbjct: 146 REVTFLEASRFAQENELMFLETSALTGENVEEAFLKCA 183

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 98/157 (62%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAG E
Sbjct: 30  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 89
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 90  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  +E  A + +  + FIETSA    N++  F+ I
Sbjct: 150 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/154 (36%), Positives = 87/154 (56%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V LG+  VGKTS++ R+  +KF++ +  T+   FL+K + +  + V L +WDTAGQE
Sbjct: 21  FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQE 80
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RF +L P Y R               SF     W+ E+R   G+++ + +VGNK DL ++
Sbjct: 81  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 140
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           R VSI+E E+ +  +      TSAK    I+ LF
Sbjct: 141 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 174

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 98/157 (62%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAG E
Sbjct: 9   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 69  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  +E  A + +  + FIETSA    N++  F+ I
Sbjct: 129 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 165

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/154 (36%), Positives = 87/154 (56%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V LG+  VGKTS++ R+  +KF++ +  T+   FL+K + +  + V L +WDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQE 66
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RF +L P Y R               SF     W+ E+R   G+++ + +VGNK DL ++
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           R VSI+E E+ +  +      TSAK    I+ LF
Sbjct: 127 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  114 bits (284), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 97/157 (61%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAG E
Sbjct: 6   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 65
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               ++ N  +W+ E+R    S+++I LVGNK+DL   
Sbjct: 66  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHL 125
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  +E  A + +  + FIETSA    N++  F+ I
Sbjct: 126 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 162

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  114 bits (284), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 97/157 (61%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAG E
Sbjct: 12  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 71
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R               ++ N  +W+ E+R    S+++I LVGNK+DL   
Sbjct: 72  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHL 131
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R V  +E  A + +  + FIETSA    N++  F+ I
Sbjct: 132 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 168

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  113 bits (283), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 96/166 (57%), Gaps = 1/166 (0%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           +P  A  K +++ +G + VGKTS++ RF  D F    ++T+G+DF  KT+ L  + +RLQ
Sbjct: 19  SPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQ 78
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVG 121
           +WDTAGQERF S+  +Y R             +++F +  KW+  +      D  ++LVG
Sbjct: 79  IWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVG 138
Query: 122 NKTDLVEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKI 166
           NK D    R+++ ++GE  ++++  M F E SAK  FN+  +F K+
Sbjct: 139 NKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKL 184

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  113 bits (282), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 63/171 (36%), Positives = 96/171 (56%), Gaps = 5/171 (2%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           L   K++ +G+  VGK+S++ RF  D FD    ATIG+DF  KT+ ++    +L +WDTA
Sbjct: 13  LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTA 72
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTD 125
           GQERFR+L PSY R             R +F+    W++E+ T    +D++  LVGNK D
Sbjct: 73  GQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKID 132
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL---PGM 173
             E R+V   EG   +R+ + +FIE SAK    ++  F ++   +   PG+
Sbjct: 133 -KENREVDRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKIIQTPGL 182

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  113 bits (282), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 55/166 (33%), Positives = 94/166 (56%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           AP +    +K + +GD  VGK+ ++ +F   KF      TIG++F ++ + +  + ++LQ
Sbjct: 8   APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQ 67
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVG 121
           +WDTAGQERFR++  SY R             R ++ + S W+ + R     + +I+L+G
Sbjct: 68  IWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIG 127
Query: 122 NKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           NK DL  +R V+ EE +  + E  ++F+E SAK G N++  F + A
Sbjct: 128 NKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAA 173

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  112 bits (281), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 60/158 (37%), Positives = 92/158 (58%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+  VGK+ ++ RF  D + N Y +TIG+DF  KT+ L+ +TV+LQ+WDTAGQE
Sbjct: 22  FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 81
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R             ++SF     W+ E+     S V+ +LVGNK DL +K
Sbjct: 82  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 141
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R V  +  +  +    + F+ETSA    N++  F  +A
Sbjct: 142 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMA 179

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  112 bits (281), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 58/157 (36%), Positives = 90/157 (57%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  D+ ++LQ+WDTAG E
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R              +SF     W  +++T    +  ++LVGNK D  ++
Sbjct: 69  RYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDE 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R VS E G   +  L   F E SAK   N+K  F ++
Sbjct: 129 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL 165

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  111 bits (278), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 61/156 (39%), Positives = 84/156 (53%), Gaps = 6/156 (3%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YK+V  GD +VGK+S + R   ++F     AT+G+DF  KT+ ++     LQLWDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE- 128
           RFRS+  SY R              +SFLN  +W+D +       V I+LVGNK D+ + 
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDT 148
Query: 129 -----KRQVSIEEGEAKSRELNVMFIETSAKAGFNI 159
                ++ V    GE  +     +F ETSAK G NI
Sbjct: 149 AATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNI 184

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  110 bits (276), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 62/162 (38%), Positives = 93/162 (57%), Gaps = 6/162 (3%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ LGD  VGKTS++ +++  KF N Y+ATIG DFL+K + ++DR V +Q+WDTAGQER
Sbjct: 10  KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQER 69
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS----DVIIVLVGNKTDL 126
           F+SL  ++ R               +F     W DE   +       +   V++GNK DL
Sbjct: 70  FQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL 129
Query: 127 VEKRQVSIEEGEAKS-RELNVMFIETSAKAGFNIKPLFRKIA 167
            E RQV+ +  +A    + N+ + ETSAK   N++  F+ IA
Sbjct: 130 -ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIA 170

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  110 bits (275), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 54/166 (32%), Positives = 93/166 (56%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           AP +    +K + +GD  VGK+ ++ +F   KF      TIG++F ++ + +  + ++LQ
Sbjct: 23  APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQ 82
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVG 121
           +WDTAGQ RFR++  SY R             R ++ + S W+ + R     + +I+L+G
Sbjct: 83  IWDTAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIG 142
Query: 122 NKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           NK DL  +R V+ EE +  + E  ++F+E SAK G N++  F + A
Sbjct: 143 NKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAA 188

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  110 bits (275), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 64/170 (37%), Positives = 95/170 (55%), Gaps = 6/170 (3%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ LGD  VGKTS++ +++  KF N Y+ATIG DFL+K + ++DR V +Q+WDTAGQER
Sbjct: 10  KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQER 69
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDL 126
           F+SL  ++ R               +F     W DE   +       +   V++GNK DL
Sbjct: 70  FQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL 129
Query: 127 VEKRQVSIEEGEAKS-RELNVMFIETSAKAGFNIKPLFRKIAAALPGMET 175
            E RQV+ +  +A    + N+ + ETSAK   N++  F+ IA      ET
Sbjct: 130 -ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQET 178

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  109 bits (273), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 91/158 (57%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G+   GK+ ++ +F+  KF +    TIG++F SK + +  + V+LQ+WDTAGQE
Sbjct: 11  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 70
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R             R+++   + W+ + R     +++I+L GNK DL   
Sbjct: 71  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 130
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R+V+  E    ++E  +MF+ETSA  G N++  F + A
Sbjct: 131 REVTFLEASRFAQENELMFLETSALTGENVEEAFVQCA 168

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  109 bits (272), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 61/162 (37%), Positives = 92/162 (56%), Gaps = 6/162 (3%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ LGD  VGKTS++ +++  KF N Y+ATIG DFL+K + ++DR V +Q+WDTAGQER
Sbjct: 10  KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQER 69
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS----DVIIVLVGNKTDL 126
           F+SL  ++ R               +F     W DE   +       +   V++GNK D 
Sbjct: 70  FQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDF 129
Query: 127 VEKRQVSIEEGEAKS-RELNVMFIETSAKAGFNIKPLFRKIA 167
            E RQV+ +  +A    + N+ + ETSAK   N++  F+ IA
Sbjct: 130 -ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIA 170

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 58/157 (36%), Positives = 87/157 (55%), Gaps = 1/157 (0%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +G+ +VGK+S+I R+    F   Y+ TIG+DFL + + + D  VRL LWDTAGQE 
Sbjct: 7   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 66
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           F ++  +Y R             R+SF   S W ++V  E G D+   LV NK DL++  
Sbjct: 67  FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDS 125
Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            +  EE E  ++ L + F  TS K   N+  +F+ +A
Sbjct: 126 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLA 162

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  107 bits (268), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 53/158 (33%), Positives = 91/158 (57%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G+   GK+ ++ +F+  KF +    TIG++F SK + +  + V+LQ+WDTAGQE
Sbjct: 12  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 71
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R             R+++   + W+ + R     +++I+L GNK DL   
Sbjct: 72  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 131
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R+V+  E    ++E  +MF+ETSA  G +++  F + A
Sbjct: 132 REVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCA 169

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  107 bits (268), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 61/162 (37%), Positives = 92/162 (56%), Gaps = 6/162 (3%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ LGD  VGKTS++ +++  KF N Y+ATIG DFL+K + ++DR V +Q+WDTAG ER
Sbjct: 10  KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGLER 69
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS----DVIIVLVGNKTDL 126
           F+SL  ++ R               +F     W DE   +       +   V++GNK DL
Sbjct: 70  FQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL 129
Query: 127 VEKRQVSIEEGEAKS-RELNVMFIETSAKAGFNIKPLFRKIA 167
            E RQV+ +  +A    + N+ + ETSAK   N++  F+ IA
Sbjct: 130 -ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIA 170

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  107 bits (268), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 92/157 (58%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +G+  VGKT++++RF  ++F +  + TIG++F ++T+ L    V+ Q+WDTAG E
Sbjct: 11  FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLE 70
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R              Q++    +W+ E+     + ++++LVGNK+DL + 
Sbjct: 71  RYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA 130
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R+V  EE    +    ++F+ETSA    N++  F  +
Sbjct: 131 REVPTEEARMFAENNGLLFLETSALDSTNVELAFETV 167

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  107 bits (268), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 92/157 (58%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +G+  VGKT++++RF  ++F +  + TIG++F ++T+ L    V+ Q+WDTAG E
Sbjct: 26  FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLE 85
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R              Q++    +W+ E+     + ++++LVGNK+DL + 
Sbjct: 86  RYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA 145
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           R+V  EE    +    ++F+ETSA    N++  F  +
Sbjct: 146 REVPTEEARMFAENNGLLFLETSALDSTNVELAFETV 182

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  106 bits (265), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 63/172 (36%), Positives = 95/172 (55%), Gaps = 9/172 (5%)
Query: 2   APVSALAK---YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTV 58
            P+ +  K   +K++ LGD  VGK+S++ R++ +KFD+    TIG++FL+K + ++   V
Sbjct: 1   GPLGSAGKSSLFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFV 60
Query: 59  RLQLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDE----VRTERGSD 114
            +Q+WDTAGQERFRSL   + R              QSF N S W  E       +    
Sbjct: 61  TMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPES 120
Query: 115 VIIVLVGNKTDLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRK 165
              V++GNKTD+ E RQVS EE +A  ++  +  + ETSAK   N+   F +
Sbjct: 121 FPFVILGNKTDIKE-RQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFEE 171

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 65/170 (38%), Positives = 94/170 (55%), Gaps = 8/170 (4%)
Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA  S+L  +K++ LGD  VGK+S++ R++ +KFD     TIG++FL+K + ++   V +
Sbjct: 3   MAGKSSL--FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTM 60
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDE----VRTERGSDVI 116
           Q+WDTAGQERFRSL   + R              QSF N S W  E       +      
Sbjct: 61  QIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP 120
Query: 117 IVLVGNKTDLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRK 165
            V++GNK D+ E RQVS EE +A  R+  +  + ETSAK   N+   F +
Sbjct: 121 FVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEE 169

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 65/170 (38%), Positives = 94/170 (55%), Gaps = 8/170 (4%)
Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA  S+L  +K++ LGD  VGK+S++ R++ +KFD     TIG++FL+K + ++   V +
Sbjct: 1   MAGKSSL--FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTM 58
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDE----VRTERGSDVI 116
           Q+WDTAGQERFRSL   + R              QSF N S W  E       +      
Sbjct: 59  QIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP 118
Query: 117 IVLVGNKTDLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRK 165
            V++GNK D+ E RQVS EE +A  R+  +  + ETSAK   N+   F +
Sbjct: 119 FVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEE 167

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  104 bits (260), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 52/158 (32%), Positives = 90/158 (56%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G+   GK+ ++ +F+  KF +    TIG++F SK + +  + V+LQ+WDTAG E
Sbjct: 9   FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGLE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R             R+++   + W+ + R     +++I+L GNK DL   
Sbjct: 69  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 128
Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           R+V+  E    ++E  +MF+ETSA  G +++  F + A
Sbjct: 129 REVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCA 166

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 57/161 (35%), Positives = 87/161 (54%), Gaps = 11/161 (6%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVRL 60
           KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +    +           V L
Sbjct: 27  KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHL 86
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTE-RGSDVIIVL 119
           QLWDTAGQERFRSL  ++ R             +QSFLN   W+ +++      +  IVL
Sbjct: 87  QLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVL 146
Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK 160
           +GNK DL ++R+V+  +    + +  + + ETSA  G N++
Sbjct: 147 IGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVE 187

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 99.8 bits (247), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 56/161 (34%), Positives = 87/161 (54%), Gaps = 11/161 (6%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVRL 60
           KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +  + +           V L
Sbjct: 13  KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHL 72
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTER-GSDVIIVL 119
           QLWDTAG ERFRSL  ++ R             +QSFLN   W+ +++      +  IVL
Sbjct: 73  QLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVL 132
Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK 160
           +GNK DL ++R+V+  +    + +  + + ETSA  G N++
Sbjct: 133 IGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 56/161 (34%), Positives = 87/161 (54%), Gaps = 11/161 (6%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVRL 60
           KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +  + +           V L
Sbjct: 13  KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHL 72
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTE-RGSDVIIVL 119
           QLWDTAG ERFRSL  ++ R             +QSFLN   W+ +++      +  IVL
Sbjct: 73  QLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVL 132
Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK 160
           +GNK DL ++R+V+  +    + +  + + ETSA  G N++
Sbjct: 133 IGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 99.0 bits (245), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 59/160 (36%), Positives = 84/160 (52%), Gaps = 11/160 (6%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE----------DRTVRL 60
           K + LGD  VGKTS++ ++   KF++ +  T+GIDF  K +              + + L
Sbjct: 13  KFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHL 72
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS-DVIIVL 119
           QLWDTAG ERFRSL  ++ R              QSFLN   WI +++    S +  IVL
Sbjct: 73  QLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVL 132
Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNI 159
            GNK+DL ++R V  EE    + +  + + ETSA  G NI
Sbjct: 133 CGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNI 172

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 98.2 bits (243), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 54/160 (33%), Positives = 95/160 (59%), Gaps = 2/160 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           ++LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + D
Sbjct: 10  NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILD 68
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNK 123
           TAGQE + ++  +Y R              +SF  T+ + +++ R +   +V  +LVGNK
Sbjct: 69  TAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNK 128
Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           +DL +KRQVS+EE + ++ + NV ++ETSAK   N+  +F
Sbjct: 129 SDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF 168

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 98.2 bits (243), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 60/169 (35%), Positives = 91/169 (53%), Gaps = 6/169 (3%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K++ LGD  VGK+S++ R++ +KFD+    TIG++FL++ + ++ R V LQ+WDTAGQER
Sbjct: 9   KVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQER 68
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDE----VRTERGSDVIIVLVGNKTDL 126
           F+SL   + R             RQSF N   W  E       +       V++GNK D 
Sbjct: 69  FKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKVD- 127
Query: 127 VEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRKIAAALPGME 174
            E RQV+ EE +    E  +  ++ETSAK   N+   F +    +  +E
Sbjct: 128 KEDRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQVLAVE 176

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 97.8 bits (242), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 58/161 (36%), Positives = 88/161 (54%), Gaps = 11/161 (6%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVRL 60
           KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +  + +           V L
Sbjct: 13  KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHL 72
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTE-RGSDVIIVL 119
           QLWDTAG ERFRSL  ++ R             +QSFLN   W  +++      +  IVL
Sbjct: 73  QLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIVL 132
Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK 160
           +GNK DL ++R+V+  +    + +  + + ETSA  G N++
Sbjct: 133 IGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 97.8 bits (242), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 58/161 (36%), Positives = 88/161 (54%), Gaps = 11/161 (6%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVRL 60
           KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +  + +           V L
Sbjct: 13  KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHL 72
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTE-RGSDVIIVL 119
           QLWDTAG ERFRSL  ++ R             +QSFLN   W  +++      +  IVL
Sbjct: 73  QLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIVL 132
Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK 160
           +GNK DL ++R+V+  +    + +  + + ETSA  G N++
Sbjct: 133 IGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 97.8 bits (242), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 54/160 (33%), Positives = 95/160 (59%), Gaps = 2/160 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           ++LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + D
Sbjct: 14  NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILD 72
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNK 123
           TAGQE + ++  +Y R              +SF  T+ + +++ R +   +V  +LVGNK
Sbjct: 73  TAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNK 132
Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           +DL +KRQVS+EE + ++ + NV ++ETSAK   N+  +F
Sbjct: 133 SDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF 172

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 97.8 bits (242), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 54/160 (33%), Positives = 95/160 (59%), Gaps = 2/160 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           ++LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + D
Sbjct: 2   NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILD 60
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNK 123
           TAGQE + ++  +Y R              +SF  T+ + +++ R +   +V  +LVGNK
Sbjct: 61  TAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNK 120
Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           +DL +KRQVS+EE + ++ + NV ++ETSAK   N+  +F
Sbjct: 121 SDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF 160

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 97.4 bits (241), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 46/115 (40%), Positives = 71/115 (61%)
Query: 12  LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF 71
           L+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQERF
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 72  RSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           R++  SY R             ++SF N  +W+ E+      +V  +LVGNK DL
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 96.7 bits (239), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 89/165 (53%), Gaps = 9/165 (5%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQE 69
           K++ LGD  VGKTS++ R++ DK+   Y+ATIG DFL+K + ++ D+   +Q+WDTAGQE
Sbjct: 10  KVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQE 69
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSD----VIIVLVGNKTD 125
           RF+SL  ++ R               SF N   W DE       +       V++GNK D
Sbjct: 70  RFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKID 129
Query: 126 LVEKRQVSIEEGE---AKSRELNVMFIETSAKAGFNIKPLFRKIA 167
             E +++  E+     AKS     +F+ TSAK   N+   F +IA
Sbjct: 130 AEESKKIVSEKSAQELAKSLGDIPLFL-TSAKNAINVDTAFEEIA 173

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 96.7 bits (239), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 52/147 (35%), Positives = 81/147 (55%), Gaps = 2/147 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD +VGKT +  RF   +F +  +ATIG+DF  + + ++   +++QLWDTAGQE
Sbjct: 30  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 89
Query: 70  RFR-SLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLV 127
           RFR S++  Y R               SF +   WI+E +     +D+  +LVGNK DL 
Sbjct: 90  RFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR 149
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAK 154
              QV  +  +  +   +    ETSAK
Sbjct: 150 SAIQVPTDLAQKFADTHSXPLFETSAK 176

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 96.7 bits (239), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 54/159 (33%), Positives = 94/159 (59%), Gaps = 2/159 (1%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           +LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + DT
Sbjct: 1   SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDT 59
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AGQE + ++  +Y R              +SF  T+ + +++ R +   +V  +LVGNK+
Sbjct: 60  AGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKS 119
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL +KRQVS+EE + ++ + NV ++ETSAK   N+  +F
Sbjct: 120 DLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVF 158

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 51/147 (34%), Positives = 81/147 (55%), Gaps = 2/147 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD +VGKT +  RF   +F +  +ATIG+DF  + + ++   +++QLWDTAGQE
Sbjct: 21  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 80
Query: 70  RFR-SLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLV 127
           RFR S++  Y R               SF +   WI+E +     +D+  +LVGNK DL 
Sbjct: 81  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR 140
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAK 154
              QV  +  +  +   ++   ETSAK
Sbjct: 141 SAIQVPTDLAQKFADTHSMPLFETSAK 167

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 94/160 (58%), Gaps = 2/160 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           ++LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + D
Sbjct: 2   NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILD 60
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNK 123
           TAG E + ++  +Y R              +SF  T+ + +++ R +   +V  +LVGNK
Sbjct: 61  TAGLEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNK 120
Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           +DL +KRQVS+EE + ++ + NV ++ETSAK   N+  +F
Sbjct: 121 SDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF 160

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 54/161 (33%), Positives = 94/161 (58%), Gaps = 3/161 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S+LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + D
Sbjct: 3   SSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILD 61
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVI-IVLVGN 122
           TAG E + ++  +Y R              +SF  T+++ +++ R +   D I +++VGN
Sbjct: 62  TAGLEDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGN 121
Query: 123 KTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           K+DL E+RQV +EE  +K+ E  V ++ETSAK   N+  +F
Sbjct: 122 KSDLEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVF 162

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 90.9 bits (224), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 53/159 (33%), Positives = 92/159 (57%), Gaps = 3/159 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + DTA
Sbjct: 1   LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVI-IVLVGNKT 124
           G E + ++  +Y R              +SF  T+++ +++ R +   D I +++VGNK+
Sbjct: 60  GLEDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKS 119
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL E+RQV +EE  +K+ E  V ++ETSAK   N+  +F
Sbjct: 120 DLEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVF 158

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 59/197 (29%), Positives = 88/197 (44%), Gaps = 40/197 (20%)
Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------- 56
           + YK V LG+ SVGK+SI+ R   D F      TIG  F +  + L D            
Sbjct: 6   SSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKN 65
Query: 57  --------------------------TVRLQLWDTAGQERFRSLIPSYIRXXXXXXXXXX 90
                                      ++  +WDTAGQER+ S++P Y R          
Sbjct: 66  NNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFD 125
Query: 91  XXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIE 150
                +      W+++++    S+ II+LV NK D   K QV I E +  +++ N++FI+
Sbjct: 126 ISNSNTLDRAKTWVNQLKI--SSNYIIILVANKIDK-NKFQVDILEVQKYAQDNNLLFIQ 182
Query: 151 TSAKAGFNIKPLFRKIA 167
           TSAK G NIK +F  +A
Sbjct: 183 TSAKTGTNIKNIFYMLA 199

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 55/174 (31%), Positives = 84/174 (48%), Gaps = 4/174 (2%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLW 63
           S + + K+V LGD + GKTS+ T F  + F   Y+ TIG+DF  + + L  +  V LQ+W
Sbjct: 2   SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61
Query: 64  DTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKW---IDEVRTERGSDVIIVLV 120
           D  GQ     ++  YI               QSF N   W   + +V  E  +  ++ LV
Sbjct: 62  DIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALV 121
Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
           GNK DL   R +  E+     +E        SAK G ++   F+K+AA + G++
Sbjct: 122 GNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIK 175

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 55/167 (32%), Positives = 88/167 (52%), Gaps = 2/167 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S   KY+LV +G   VGK+++  +F+   F   Y  TI  D  +K   ++DR  RL + D
Sbjct: 1   SMQEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILD 59
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNK 123
           TAGQE F ++   Y+R             R SF    K+  ++ R +   +  ++L+GNK
Sbjct: 60  TAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNK 119
Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            DL  +RQV+ EEG+  +R+L V ++E SAK   N+   F ++   +
Sbjct: 120 ADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVI 166

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/173 (30%), Positives = 85/173 (49%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 15  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 74
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 75  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 131
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 132 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 179

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/173 (30%), Positives = 85/173 (49%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 126
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/173 (30%), Positives = 85/173 (49%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 126
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/173 (30%), Positives = 85/173 (49%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 70  EKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 126
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/173 (30%), Positives = 85/173 (49%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 3   QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 62
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 63  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 119
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 120 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 167

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/173 (31%), Positives = 86/173 (49%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 70  EKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 126
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 51/174 (29%), Positives = 84/174 (48%), Gaps = 13/174 (7%)
Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
            ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAG
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 68  QERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDL 126
           QE+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D+
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVDI 126
Query: 127 VEKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
            +++       +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV------KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 85/172 (49%), Gaps = 13/172 (7%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD   GKT+ + R +  +F+  Y ATIG++    + Y     ++  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLVE 128
           +F  L   Y               R ++ N   W  D VR     ++ IVL GNK D V+
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV--CENIPIVLCGNKVD-VK 129
Query: 129 KRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           +R+V     +AK+    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 130 ERKV-----KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQL 176

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 52/173 (30%), Positives = 85/173 (49%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E++  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 70  EKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 126
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 85/172 (49%), Gaps = 13/172 (7%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD   GKT+ + R +  +F+  Y ATIG++    + Y     ++  +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLVE 128
           +F  L   Y               R ++ N   W  D VR     ++ IVL GNK D V+
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV--CENIPIVLCGNKVD-VK 121
Query: 129 KRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           +R+V     +AK+    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 122 ERKV-----KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQL 168

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 85/172 (49%), Gaps = 13/172 (7%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD   GKT+ + R +  +F+  Y ATIG++    + Y     ++  +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLVE 128
           +F  L   Y               R ++ N   W  D VR     ++ IVL GNK D V+
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV--CENIPIVLCGNKVD-VK 122
Query: 129 KRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           +R+V     +AK+    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 123 ERKV-----KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQL 169

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 52/173 (30%), Positives = 84/173 (48%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y  T+G++      +     ++  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 126
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 86/168 (51%), Gaps = 19/168 (11%)
Query: 10  YKLVFLGDQSVGKTSIITRF--MYDKFD--------NTYQATIGIDFLSKTMYLEDRTVR 59
           Y++V +G+Q VGK+++   F  ++D  D        +TY+ T+ +D  S T+ L      
Sbjct: 38  YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIIL------ 91
Query: 60  LQLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS-DVIIV 118
           L +W+  G+  +  L    ++             R SF   S+   ++R  R + D+ I+
Sbjct: 92  LDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPII 149
Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           LVGNK+DLV  R+VS+ EG A +   +  FIETSA    N+K LF  I
Sbjct: 150 LVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGI 197

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 87/172 (50%), Gaps = 19/172 (11%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRF--MYDKFD--------NTYQATIGIDFLSKTMYLED 55
            +  Y++V +G+Q VGK+++   F  ++D  D        +TY+ T+ +D  S T+ L  
Sbjct: 3   GMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIIL-- 60
Query: 56  RTVRLQLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS-D 114
               L +W+  G+  +  L    ++             R SF   S+   ++R  R + D
Sbjct: 61  ----LDMWENKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTED 114
Query: 115 VIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           + I+LVGNK+DLV  R+VS+ EG A +   +  FIETSA    N+K LF  I
Sbjct: 115 IPIILVGNKSDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGI 166

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 86/168 (51%), Gaps = 19/168 (11%)
Query: 10  YKLVFLGDQSVGKTSIITRF--MYDKFD--------NTYQATIGIDFLSKTMYLEDRTVR 59
           Y++V +G+Q VGK+++   F  ++D  D        +TY+ T+ +D  S T+ L      
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIIL------ 60
Query: 60  LQLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS-DVIIV 118
           L +W+  G+  +  L    ++             R SF   S+   ++R  R + D+ I+
Sbjct: 61  LDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPII 118
Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           LVGNK+DLV  R+VS+ EG A +   +  FIETSA    N+K LF  I
Sbjct: 119 LVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGI 166

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 50/174 (28%), Positives = 83/174 (47%), Gaps = 13/174 (7%)
Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
            ++KLV +GD   GKT+ + R +  +F+  Y  T+G++      +     ++  +WDTAG
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 68  QERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDL 126
           QE+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D+
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVDI 126
Query: 127 VEKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
            +++       +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV------KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 87/172 (50%), Gaps = 19/172 (11%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRF--MYDKFD--------NTYQATIGIDFLSKTMYLED 55
            +  Y++V +G+Q VGK+++   F  ++D  D        +TY+ T+ +D  S T+ L  
Sbjct: 3   GMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIIL-- 60
Query: 56  RTVRLQLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS-D 114
               L +W+  G+  +  L    ++             R SF   S+   ++R  R + D
Sbjct: 61  ----LDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTED 114
Query: 115 VIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           + I+LVGNK+DLV  R+VS+ EG A +   +  FIETSA    N+K LF  I
Sbjct: 115 IPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGI 166

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 87/159 (54%), Gaps = 3/159 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV LG   VGK+++  +F+   F + Y  TI  D   K + ++ +   L++ DTA
Sbjct: 1   MREYKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIE-DSYRKQVEVDCQQCMLEILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E+F ++   Y++             + +F +     +++ R +   DV ++LVGNK D
Sbjct: 60  GTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRE-LNVMFIETSAKAGFNIKPLF 163
           L ++R V  E+G+  +R+  N  F+E+SAK+  N+  +F
Sbjct: 120 LEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIF 158

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/165 (32%), Positives = 80/165 (48%), Gaps = 14/165 (8%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++  TV L LWDTAGQE 
Sbjct: 8   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTV-FDNFSANVVVDGNTVNLGLWDTAGQED 66
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P   R             + S+ N + KWI E+R      V I+LVG K DL + 
Sbjct: 67  YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR-HYAPGVPIILVGTKLDLRDD 125
Query: 130 RQVSIEEGEA------KSREL-----NVMFIETSAKAGFNIKPLF 163
           +Q  I+   A      +  EL     + ++IE S+K   N+K +F
Sbjct: 126 KQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVF 170

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/173 (30%), Positives = 84/173 (48%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAG 
Sbjct: 12  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGL 71
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 72  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 128
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 129 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 176

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 59/185 (31%), Positives = 86/185 (46%), Gaps = 19/185 (10%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKTS++  +  + +   Y  T   D  S  + ++ R VRLQL DTAGQ+ 
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPT-AFDNFSAVVSVDGRPVRLQLCDTAGQDE 80
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           F  L P                   SF N S KW+ E+R        I+LVG ++DL E 
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRC-HCPKAPIILVGTQSDLRED 139
Query: 130 RQVSIEEGEAKSRELN-------------VMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
            +V IE  + K + +                +IE SA    N+K +F   AA + G++  
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFD--AAIVAGIQ-Y 196
Query: 177 SSTKQ 181
           S T+Q
Sbjct: 197 SDTQQ 201

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/173 (30%), Positives = 84/173 (48%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAG 
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGL 69
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 126
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 127 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/174 (28%), Positives = 83/174 (47%), Gaps = 13/174 (7%)
Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
            ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAG
Sbjct: 5   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 64
Query: 68  QERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDL 126
            E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D+
Sbjct: 65  LEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVDI 122
Query: 127 VEKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
            +++       +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 123 KDRKV------KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 170

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 86/159 (54%), Gaps = 3/159 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV LG   VGK+++  +F+   F   Y  TI  D   K + ++ +   L++ DTA
Sbjct: 1   MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E+F ++   Y++             + +F +     +++ R +   DV ++LVGNK D
Sbjct: 60  GTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRE-LNVMFIETSAKAGFNIKPLF 163
           L ++R V  E+G+  +R+  N  F+E+SAK+  N+  +F
Sbjct: 120 LEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIF 158

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 55/165 (33%), Positives = 79/165 (47%), Gaps = 14/165 (8%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + +   TV L LWDTAGQE 
Sbjct: 10  KCVTVGDGAVGKTCLLISYTSNTFPTDYVPTV-FDNFSANVVVNGATVNLGLWDTAGQED 68
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P   R             + S+ N S KWI E++      V IVLVG K DL + 
Sbjct: 69  YNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELK-HYAPGVPIVLVGTKLDLRDD 127
Query: 130 RQVSIEEGEA------KSRELNVM-----FIETSAKAGFNIKPLF 163
           +Q  I+   A      +  EL  +     +IE S+K+  N+K +F
Sbjct: 128 KQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 52/173 (30%), Positives = 84/173 (48%), Gaps = 13/173 (7%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  + +  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 15  QFKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 74
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLV 127
           E+F  L   Y               R ++ N   W  D VR     ++ IVL GNK D +
Sbjct: 75  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENIPIVLCGNKVD-I 131
Query: 128 EKRQVSIEEGEAKS----RELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           + R+V     +AKS    R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 132 KDRKV-----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 179

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 74.7 bits (182), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 48/160 (30%), Positives = 87/160 (54%), Gaps = 3/160 (1%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++ +YKLV LG   VGK+++  +F+   F   Y  TI  D   K + ++ +   L++ DT
Sbjct: 2   SMREYKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDAQQCMLEILDT 60
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AG E+F ++   Y++             + +F +     +++ R +   DV ++LVGNK 
Sbjct: 61  AGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKC 120
Query: 125 DLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLF 163
           DL ++R V  E+G+  +R+  N  F+E+SAK+  N+  +F
Sbjct: 121 DLEDERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIF 160

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 86/159 (54%), Gaps = 3/159 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV LG   VGK+++  +F+   F   Y  TI  D   K + ++ +   L++ DTA
Sbjct: 1   MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDAQQCMLEILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E+F ++   Y++             + +F +     +++ R +   DV ++LVGNK D
Sbjct: 60  GTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLF 163
           L ++R V  E+G+  +R+  N  F+E+SAK+  N+  +F
Sbjct: 120 LEDERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIF 158

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
            + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT
Sbjct: 1   GMTEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDT 59
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AGQE + ++   Y+R              +SF +   + +++ R +   DV +VLVGNK+
Sbjct: 60  AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKS 119
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL   R V  ++ +  +R   + FIETSAK    +   F
Sbjct: 120 DL-PSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAF 157

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 73.6 bits (179), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 78/169 (46%), Gaps = 3/169 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR--TVRLQLWDTAG 67
           YK+  +GD  VGKT+ I R +  +F+  Y AT+G        +L+D+   ++  +WDTAG
Sbjct: 12  YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGA-VNHPVTFLDDQGNVIKFNVWDTAG 70
Query: 68  QERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV 127
           QE+   L   Y               R +  N ++W+ E +   G++  IV+  NK D+ 
Sbjct: 71  QEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIK 130
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
            ++++S +      +  N  + E SAK   N    F  +A    G   L
Sbjct: 131 NRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDL 179

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 48/156 (30%), Positives = 79/156 (50%), Gaps = 3/156 (1%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTAGQ
Sbjct: 4   EYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQ 62
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLV 127
           E + ++   Y+R              +SF +   + +++ R +   DV +VLVGNK DL 
Sbjct: 63  EEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL- 121
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
             R V  ++ +  +R   + FIETSAK    +   F
Sbjct: 122 PSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAF 157

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 82/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G + VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGARGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-GRTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 53/161 (32%), Positives = 78/161 (48%), Gaps = 4/161 (2%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++A Y++V LGD  VGKTS+ + F   K +      +G D   +T+ ++     L + DT
Sbjct: 1   SMALYRVVLLGDPGVGKTSLASLFA-GKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDT 59
Query: 66  AGQERFRSLIP--SYIRXXXXXXXXXXXXXRQSFLNTSKW-IDEVRTERGSDVIIVLVGN 122
              E+        S ++             R SF + S+  I   RT +   V I+LVGN
Sbjct: 60  WEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGN 119
Query: 123 KTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           K DL   R+VS+EEG A +   +  FIETSA    N+  LF
Sbjct: 120 KADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF 160

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 51/163 (31%), Positives = 80/163 (49%), Gaps = 12/163 (7%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 11  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVAVDGQIVNLGLWDTAGQED 69
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P   R             + S+ N   KW+ E+R     +V IVLVG K DL + 
Sbjct: 70  YSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELR-RFAPNVPIVLVGTKLDLRDD 128
Query: 130 RQ--------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
           +         ++  +GE   +++    +IE S+K   N+K +F
Sbjct: 129 KGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF 171

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 53/164 (32%), Positives = 81/164 (49%), Gaps = 8/164 (4%)
Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           A+ KL   G   VGK++++ RF+  +F   Y  T+   +  +   ++D  V +++ DTAG
Sbjct: 27  AEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT-IDDEVVSMEILDTAG 85
Query: 68  QERFRSLIPSYIRXXXXXXXXXXXXXRQSF---LNTSKWIDEVRTERGSDVIIVLVGNKT 124
           QE        ++R             R SF   L     +DE++  +  +V ++LVGNK 
Sbjct: 86  QEDTIQR-EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPK--NVTLILVGNKA 142
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAG-FNIKPLFRKIA 167
           DL   RQVS EEGE  + EL   F E SA  G  NI  +F ++ 
Sbjct: 143 DLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELC 186

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 79/165 (47%), Gaps = 14/165 (8%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++  TV L LWDTAGQE 
Sbjct: 8   KCVTVGDGAVGKTCMLISYTGNTFPTDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQED 66
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P   R             + S+ N   KW+ E++      + IVLVG K DL + 
Sbjct: 67  YNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELK-HYAPGIPIVLVGTKLDLRDD 125
Query: 130 RQ----------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
           +Q          ++  +GE   + +  V ++E S+K   N+K +F
Sbjct: 126 KQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVF 170

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 53/162 (32%), Positives = 79/162 (48%), Gaps = 2/162 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +G   VGK+++  +F+   F + Y  TI  D  +K   ++    RL + DTAGQE
Sbjct: 10  HKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQE 68
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
            F ++   Y+R             RQSF    K   ++ R +   D  +VLVGNK DL  
Sbjct: 69  EFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLES 128
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           +RQV   E  A     +V + E SAK   N+   F ++  A+
Sbjct: 129 QRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 170

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/159 (28%), Positives = 74/159 (46%), Gaps = 3/159 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           Y++   G   VGK+S++ RF+   F  +Y  T+  D   + +  +     LQ+ DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVE-DTYRQVISCDKSICTLQITDTTGSH 62
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLV 127
           +F ++    I              RQS        +++   +G    + I+LVGNK D  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
             R+V   E EA +R     F+ETSAK   N+K LF+++
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL 161

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 52/160 (32%), Positives = 82/160 (51%), Gaps = 8/160 (5%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  LG +SVGK+S+  +F+  +F ++Y  TI   F +K + +  +   LQL DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSF----LNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           +     +Y                +SF    +   K +D V   +   + I+LVGNK DL
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIMLVGNKKDL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
             +R +S EEG+A +   N  F+E+SAK       +FR+I
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 163

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 52/160 (32%), Positives = 82/160 (51%), Gaps = 8/160 (5%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  LG +SVGK+S+  +F+  +F ++Y  TI   F +K + +  +   LQL DTAGQ+ 
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 61
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSF----LNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           +     +Y                +SF    +   K +D V   +   + I+LVGNK DL
Sbjct: 62  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIMLVGNKKDL 118
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
             +R +S EEG+A +   N  F+E+SAK       +FR+I
Sbjct: 119 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 158

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 52/160 (32%), Positives = 82/160 (51%), Gaps = 8/160 (5%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  LG +SVGK+S+  +F+  +F ++Y  TI   F +K + +  +   LQL DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSF----LNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           +     +Y                +SF    +   K +D V   +   + I+LVGNK DL
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIMLVGNKKDL 123
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
             +R +S EEG+A +   N  F+E+SAK       +FR+I
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 163

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 51/173 (29%), Positives = 80/173 (46%), Gaps = 16/173 (9%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           SA  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWD
Sbjct: 5   SAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWD 63
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P                   S  N   KW  EV+     +V I+LVGNK
Sbjct: 64  TAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNK 122
Query: 124 TDL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
            DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 123 KDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 175

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 66  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 124
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 67
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 68  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 126
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 127 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 173

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 67.0 bits (162), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 52/176 (29%), Positives = 80/176 (45%), Gaps = 16/176 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P                   SF N  +KW  EVR        I+LVG K DL + 
Sbjct: 65  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPHTPILLVGTKLDLRDD 123
Query: 130 RQ------------VSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRKIAAALPG 172
           +             ++  +G A +RE+ +V ++E SA     +K +F +   A+ G
Sbjct: 124 KDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAVLG 179

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 24  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 82
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 83  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 141
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 142 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 188

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 52/176 (29%), Positives = 80/176 (45%), Gaps = 16/176 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P                   SF N  +KW  EVR        I+LVG K DL + 
Sbjct: 65  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPHTPILLVGTKLDLRDD 123
Query: 130 RQ------------VSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRKIAAALPG 172
           +             ++  +G A +RE+ +V ++E SA     +K +F +   A+ G
Sbjct: 124 KDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAVLG 179

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 90
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 149
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 150 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNAFSGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 73
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 74  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 132
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 133 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 179

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 4   AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 62
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 63  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 121
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 122 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 173

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 3   AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 61
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 62  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 120
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 121 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 172

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 4   AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 62
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 63  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 121
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 122 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 173

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 52/167 (31%), Positives = 79/167 (47%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 11  KCVVVGDVAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQED 69
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   S+ N  +KW  EVR    S  II LVG K DL   
Sbjct: 70  YDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPII-LVGTKLDLRDD 128
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E++ V ++E SA     +K +F
Sbjct: 129 KDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 175

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 76/167 (45%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P                   SF N  +KW  EVR        I+LVG K DL + 
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPHTPILLVGTKLDLRDD 122
Query: 130 RQ------------VSIEEGEAKSREL-NVMFIETSAKAGFNIKPLF 163
           +             ++  +G A +RE+ +V ++E SA     +K +F
Sbjct: 123 KDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 169

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 2   AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 60
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 61  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 119
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 120 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 80/172 (46%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 22  AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIAD-IEVDGKQVELALWDT 80
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 81  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 139
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  ++   ++E SAK    ++ +F
Sbjct: 140 DLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/173 (29%), Positives = 79/173 (45%), Gaps = 16/173 (9%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S +   K V +GD +VGK  ++  +  + F   Y  T+  D  S  + ++ + V L LWD
Sbjct: 6   SGMQAIKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWD 64
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P                   SF N  +KW  EVR     +  I+LVG K
Sbjct: 65  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTK 123
Query: 124 TDL------VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
            DL      +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 124 LDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 176

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 5   AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 63
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 64  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 122
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 123 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 174

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 4   AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 62
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 63  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 121
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 122 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 173

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/170 (30%), Positives = 80/170 (47%), Gaps = 3/170 (1%)
Query: 7   LAKY-KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           L +Y K+V LG + VGKTS+  +F+  +F   Y  T+   + SK + L      L L DT
Sbjct: 21  LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDT 79
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKT 124
           AGQ+ +  L  S+I                SF        ++    G + V +VLVGNK 
Sbjct: 80  AGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKA 139
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
           DL  +R+V   EG+  +      F+E+SA+     + +F K+   +  +E
Sbjct: 140 DLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVE 189

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 52/167 (31%), Positives = 79/167 (47%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   S+ N  +KW  EVR    S  II LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPII-LVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E++ V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 169

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 3   AAIRKKLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 61
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 62  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 120
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 121 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 172

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 48/163 (29%), Positives = 84/163 (51%), Gaps = 3/163 (1%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
            P+ ++ +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L 
Sbjct: 1   GPLGSMTEYKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLD 59
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLV 120
           + DTAGQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLV
Sbjct: 60  ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLV 119
Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           GNK DL   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 GNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 161

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 48/163 (29%), Positives = 84/163 (51%), Gaps = 3/163 (1%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
            P+ ++ +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L 
Sbjct: 1   GPLGSMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLD 59
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLV 120
           + DTAGQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLV
Sbjct: 60  ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLV 119
Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           GNK DL   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 GNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 161

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 52/167 (31%), Positives = 79/167 (47%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 12  KCVVVGDVAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQED 70
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   S+ N  +KW  EVR    S  II LVG K DL   
Sbjct: 71  YDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPII-LVGTKLDLRDD 129
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E++ V ++E SA     +K +F
Sbjct: 130 KDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 176

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 80/172 (46%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 22  AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIAD-IEVDGKQVELALWDT 80
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 81  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFXPNVPIILVGNKK 139
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  ++   ++E SAK    ++ +F
Sbjct: 140 DLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 63.9 bits (154), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +     Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNALPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 90
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 149
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 150 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 63.9 bits (154), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 51/160 (31%), Positives = 81/160 (50%), Gaps = 8/160 (5%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  LG +SVGK+S+  +F+  +F ++   TI   F +K + +  +   LQL DTAGQ+ 
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSF----LNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           +     +Y                +SF    +   K +D V   +   + I+LVGNK DL
Sbjct: 65  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIMLVGNKKDL 121
Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
             +R +S EEG+A +   N  F+E+SAK       +FR+I
Sbjct: 122 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 161

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 81/164 (49%), Gaps = 3/164 (1%)
Query: 4   VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 63
           VS  + YK++ LG   VGK+++    ++   ++  +A        +++ ++     L ++
Sbjct: 2   VSDESVYKVLLLGAPGVGKSALAR--IFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVY 59
Query: 64  DTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSD-VIIVLVGN 122
           D   Q+  R L    +              + SF   S+   ++R  R +D V I+LVGN
Sbjct: 60  DIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGN 119
Query: 123 KTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           K+DLV  R+VS++EG A +   +  FIETSA    N++ LF  +
Sbjct: 120 KSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGV 163

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 44/158 (27%), Positives = 78/158 (49%), Gaps = 3/158 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YK++ LG   VGK+++    ++   ++  +A        +++ ++     L ++D   Q+
Sbjct: 3   YKVLLLGAPGVGKSALAR--IFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQD 60
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLVE 128
             R L    +              + SF   S+   ++R  R +D V I+LVGNK+DLV 
Sbjct: 61  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 120
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
            R+VS++EG A +   +  FIETSA    N++ LF  +
Sbjct: 121 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGV 158

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 44/158 (27%), Positives = 78/158 (49%), Gaps = 3/158 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YK++ LG   VGK+++    ++   ++  +A        +++ ++     L ++D   Q+
Sbjct: 8   YKVLLLGAPGVGKSALAR--IFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQD 65
Query: 70  RFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLVE 128
             R L    +              + SF   S+   ++R  R +D V I+LVGNK+DLV 
Sbjct: 66  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 125
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
            R+VS++EG A +   +  FIETSA    N++ LF  +
Sbjct: 126 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGV 163

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLED 66
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 67  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 125
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 126 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 172

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 122
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 56/162 (34%), Positives = 86/162 (53%), Gaps = 2/162 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YK+V LG   VGK+++  +F+   F   Y  TI  DF  K + ++     L++ DTA
Sbjct: 1   MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E+F S+   YI+             +QSF +     D++ R +R   V ++LVGNK D
Sbjct: 60  GTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           L  +R+VS  EG A + E    F+ETSAK+   +  LF +I 
Sbjct: 120 LESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV 161

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E 
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLED 90
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N  +KW  EVR     +  I+LVG K DL   
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 149
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 150 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 46/171 (26%), Positives = 79/171 (46%), Gaps = 16/171 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD   GKTS++  F    F  +Y  T+   ++   + ++ + V L +WDTAGQ+ 
Sbjct: 36  KVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMV-NLQVKGKPVHLHIWDTAGQDD 94
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P +                 SF N  ++W  EV       V I++VG KTDL + 
Sbjct: 95  YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV-NHFCKKVPIIVVGCKTDLRKD 153
Query: 130 RQ------------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRKIA 167
           +             V+   G+  +R +  V ++E SA+   N+  +F++ A
Sbjct: 154 KSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAA 204

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++ + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 22  SMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEVDGKQVELALWDT 80
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW+ EV+     +V I+LV NK 
Sbjct: 81  AGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVK-HFCPNVPIILVANKK 139
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  ++G A +  +    ++E SAK    ++ +F
Sbjct: 140 DLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVF 191

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 78/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++     D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 2   AAIRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 60
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 61  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 119
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 120 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 78/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++     D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 2   AAIRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 60
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 61  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 119
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 120 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 78/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++     D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 2   AAIRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDT 60
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 61  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 119
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 120 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 47/163 (28%), Positives = 83/163 (50%), Gaps = 3/163 (1%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
            P+ ++ +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L 
Sbjct: 1   GPLGSMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLD 59
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLV 120
           + DTAG E + ++   Y+R              +SF +  ++ +++ R +   DV +VLV
Sbjct: 60  ILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLV 119
Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           GNK DL   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 GNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 161

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
            + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT
Sbjct: 1   GMTEYKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDT 59
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AGQE + ++   Y+R              +SF +   + +++ R +   DV +VLVGNK+
Sbjct: 60  AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKS 119
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL   R V  ++ +  +R   + FIETSAK    +   F
Sbjct: 120 DL-PSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAF 157

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
            + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT
Sbjct: 1   GMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDT 59
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AGQE + ++   Y+R              +SF +   + +++ R +   DV +VLVGNK+
Sbjct: 60  AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKS 119
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL   R V  ++ +  +R   + FIETSAK    +   F
Sbjct: 120 DL-PSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAF 157

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 79/172 (45%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++     D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 2   AAIRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYIA-DIEVDGKQVELALWDT 60
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +  L P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 61  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 119
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V  EEG   +  ++   ++E SAK    ++ +F
Sbjct: 120 DLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 171

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 75/159 (47%), Gaps = 6/159 (3%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD +VGKT ++  F   +    Y  T+  +F S  M  ++    L LWDTAGQE 
Sbjct: 25  KIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQEE 83
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVE- 128
           +  L P                 R SF N S KW  E++    +    VLVG K DL + 
Sbjct: 84  YDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDT-AKTVLVGLKVDLRKD 142
Query: 129 -KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK 165
               V+ +EG+   ++L  V +IE S+ A   +  +F K
Sbjct: 143 GSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEK 181

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 54/182 (29%), Positives = 83/182 (45%), Gaps = 17/182 (9%)
Query: 4   VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 63
           +SA+   K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+
Sbjct: 5   ISAMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLF 63
Query: 64  DTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGN 122
           DTAGQE +  L P                   SF N   KW+ E+ T        +LVG 
Sbjct: 64  DTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGT 122
Query: 123 KTDL------VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAA 168
           + DL      +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I A
Sbjct: 123 QIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILA 182
Query: 169 AL 170
           AL
Sbjct: 183 AL 184

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 47/159 (29%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++ +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT
Sbjct: 7   SMTEYKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDT 65
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AGQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK 
Sbjct: 66  AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKC 125
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 126 DLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 163

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 75/159 (47%), Gaps = 6/159 (3%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD +VGKT ++  F   +    Y  T+  +F S  M  ++    L LWDTAGQE 
Sbjct: 24  KIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQEE 82
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVE- 128
           +  L P                 R SF N S KW  E++    +    VLVG K DL + 
Sbjct: 83  YDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDT-AKTVLVGLKVDLRKD 141
Query: 129 -KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK 165
               V+ +EG+   ++L  V +IE S+ A   +  +F K
Sbjct: 142 GSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEK 180

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 76/167 (45%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV +GD + GKT ++     D+F   Y  T+  ++++  + ++ + V L LWDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   S  N   KW  EV+     +V I+LVGNK DL   
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 122
Query: 127 ---------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
                    +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 169

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 76/167 (45%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV +GD + GKT ++     D+F   Y  T+  ++++  + ++ + V L LWDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   S  N   KW  EV+     +V I+LVGNK DL   
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 122
Query: 127 ---------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
                    +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 169

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 49/166 (29%), Positives = 84/166 (50%), Gaps = 3/166 (1%)
Query: 3   PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQL 62
           P   L  YKLV +GD  VGK+++  +F    F + Y  TI   +L  T  ++++   L +
Sbjct: 12  PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYLKHTE-IDNQWAILDV 70
Query: 63  WDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVG 121
            DTAGQE F ++   Y+R             + SF +  ++   + R +      ++LV 
Sbjct: 71  LDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVA 130
Query: 122 NKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK-AGFNIKPLFRKI 166
           NK DL+  R+V+ ++G+  + + N+ +IETSAK    N+   F  +
Sbjct: 131 NKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDL 176

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 76/167 (45%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV +GD + GKT ++      +F   Y  T+  ++++  + ++ R V L LWDTAGQE 
Sbjct: 12  KLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENYVAD-VEVDGRRVELALWDTAGQED 70
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P                   S  N   KWI EV       V I+LVG K DL   
Sbjct: 71  YDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEV-LHFCQGVPIILVGCKVDLRND 129
Query: 130 RQ------------VSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
            Q            V+ +EG++ + ++    + E SAK G+ ++ +F
Sbjct: 130 PQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVF 176

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDEYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 47/160 (29%), Positives = 82/160 (51%), Gaps = 3/160 (1%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S + +YKLV +G   VGK+++  + + + F + Y  +I  D   K + ++  T  L + D
Sbjct: 5   SDMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPSIE-DSYRKQVVIDGETCLLDILD 63
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNK 123
           TAGQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK
Sbjct: 64  TAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNK 123
Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
            DL   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 124 CDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 162

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDKYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 77/172 (44%), Gaps = 16/172 (9%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           A  + KLV +GD + GKT ++  F  D+F   Y  T+  ++++  + ++ + V L LWDT
Sbjct: 2   AAIRKKLVIVGDVACGKTCLLIVFSKDQFPAVYVPTVFENYVAD-IEVDGKQVELALWDT 60
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKT 124
           AGQE +    P                   S  N   KW  EV+     +V I+LVGNK 
Sbjct: 61  AGQEDYDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKK 119
Query: 125 DL------------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
           DL            +++  V   EG   +  +    ++E SAK    ++ +F
Sbjct: 120 DLRNDEHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 81/174 (46%), Gaps = 16/174 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  D F   Y  T+  D  + ++ +  +   L L+DTAGQE 
Sbjct: 20  KCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQED 78
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   +W+ E++ E   +V  +L+G + DL   
Sbjct: 79  YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELK-EYAPNVPFLLIGTQIDLRDD 137
Query: 127 ---------VEKRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRKIAAAL 170
                    ++++ + +E+G+  ++E+    ++E SA     +K +F +   A+
Sbjct: 138 PKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 191

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 43/147 (29%), Positives = 72/147 (48%), Gaps = 4/147 (2%)
Query: 22  KTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRX 81
           K+S++ RF+   F +TY  TI  D   + +  +     LQ+ DT G  +F ++    I  
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIE-DTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 82  XXXXXXXXXXXXRQSFLNTSKWIDEVRTERGS--DVIIVLVGNKTDLVEKRQVSIEEGEA 139
                       +QS          +   +GS  D+ ++LVGNK D  + R+V   E +A
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQA 138
Query: 140 KSRELNVMFIETSAKAGFNIKPLFRKI 166
            ++E    F+ETSAK  +N+K LF+++
Sbjct: 139 VAQEWKCAFMETSAKMNYNVKELFQEL 165

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 60.8 bits (146), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 60.5 bits (145), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 60.5 bits (145), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 47/159 (29%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
            + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT
Sbjct: 18  GMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDT 76
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AGQE + ++   Y+R              +SF + + + +++ R +   DV +VLVGNK 
Sbjct: 77  AGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKC 136
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           DL   R V  ++    ++   + FIETSAK    ++  F
Sbjct: 137 DL-PTRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAF 174

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 49/166 (29%), Positives = 83/166 (50%), Gaps = 3/166 (1%)
Query: 3   PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQL 62
           P   L  YKLV +GD  VGK+++  +F    F   Y  TI   +L  T  ++++   L +
Sbjct: 12  PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVPEYDPTIEDSYLKHTE-IDNQWAILDV 70
Query: 63  WDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVG 121
            DTAGQE F ++   Y+R             + SF +  ++   + R +      ++LV 
Sbjct: 71  LDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVA 130
Query: 122 NKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK-AGFNIKPLFRKI 166
           NK DL+  R+V+ ++G+  + + N+ +IETSAK    N+   F  +
Sbjct: 131 NKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDL 176

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK ++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKNALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 77/150 (51%), Gaps = 3/150 (2%)
Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
            + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT
Sbjct: 18  GMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDT 76
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKT 124
           AG E + ++   Y+R              +SF +   + +++ R +   DV +VLVGNK 
Sbjct: 77  AGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKC 136
Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAK 154
           DL   R V  ++ +  +R   + FIETSAK
Sbjct: 137 DL-PSRTVDTKQAQDLARSYGIPFIETSAK 165

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F   Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVEKYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E 
Sbjct: 157 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLED 215
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF +  +KW  EVR     +  I+LVG K DL   
Sbjct: 216 YDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 274
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 275 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 49/170 (28%), Positives = 84/170 (49%), Gaps = 3/170 (1%)
Query: 3   PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQL 62
           P   L  YKLV +GD  VGK+++  +F    F   Y  TI   +L  T  ++++   L +
Sbjct: 7   PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTE-IDNQWAILDV 65
Query: 63  WDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVG 121
            DTAGQE F ++   Y+R             + SF +  ++   + R +      ++LV 
Sbjct: 66  LDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVA 125
Query: 122 NKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK-AGFNIKPLFRKIAAAL 170
           NK DL+  R+V+ ++G+  + + N+ +IETSAK    N+   F  +   +
Sbjct: 126 NKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 175

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E 
Sbjct: 157 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLED 215
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF +  +KW  EVR     +  I+LVG K DL   
Sbjct: 216 YDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 274
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 275 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E 
Sbjct: 157 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLED 215
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF +  +KW  EVR     +  I+LVG K DL   
Sbjct: 216 YDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 274
Query: 127 ---VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
              +EK +      ++  +G A ++E+  V ++E SA     +K +F
Sbjct: 275 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGN+ D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  +I  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPSIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 49/170 (28%), Positives = 84/170 (49%), Gaps = 3/170 (1%)
Query: 3   PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQL 62
           P   L  YKLV +GD  VGK+++  +F    F + Y  TI  D   K   ++++   L +
Sbjct: 12  PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDEYDPTIE-DSYRKHTEIDNQWAILDV 70
Query: 63  WDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVG 121
            DTAGQE F ++   Y+R             + SF +  ++   + R +      ++LV 
Sbjct: 71  LDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVA 130
Query: 122 NKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK-AGFNIKPLFRKIAAAL 170
           NK DL+  R+V+ ++G+  + + N+ +IETSAK    N+   F  +   +
Sbjct: 131 NKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI   +  K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEESY-RKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT 
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTG 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + +  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEFDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 53/181 (29%), Positives = 81/181 (44%), Gaps = 17/181 (9%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S +   K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+D
Sbjct: 2   SHMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFD 60
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P                   SF N   KW+ E+ T        +LVG +
Sbjct: 61  TAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQ 119
Query: 124 TDL------VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAA 169
            DL      +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AA
Sbjct: 120 IDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 179
Query: 170 L 170
           L
Sbjct: 180 L 180

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G+E + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GKEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DT 
Sbjct: 1   MTEYKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTT 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 75/167 (44%), Gaps = 16/167 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV +GD + GKT ++     D+F   Y  T+  ++++  + ++ + V L LWDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVAD-IEVDGKQVELALWDTAGLED 68
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   S  N   KW  EV+     +V I+LVGNK DL   
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 127
Query: 127 ---------VEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLF 163
                    +++  V  EEG   +  +    ++E SAK    ++ +F
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 174

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE   ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEASAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 53/181 (29%), Positives = 81/181 (44%), Gaps = 17/181 (9%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S +   K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+D
Sbjct: 1   SHMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFD 59
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P                   SF N   KW+ E+ T        +LVG +
Sbjct: 60  TAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQ 118
Query: 124 TDL------VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAA 169
            DL      +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AA
Sbjct: 119 IDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 178
Query: 170 L 170
           L
Sbjct: 179 L 179

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/156 (26%), Positives = 75/156 (48%), Gaps = 2/156 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ LG+  VGK+++   F   + DN ++     D   + + ++   V L ++D   Q 
Sbjct: 13  FKVMLLGESGVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQG 72
Query: 70  RFRSLIPSY-IRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLV 127
                +  + ++             R+SF    + +  +R  R   D+ ++LVGNK+DL 
Sbjct: 73  DAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA 132
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
             R+VS+EEG   +  L+   IETSA    N + LF
Sbjct: 133 RSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 168

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 53/181 (29%), Positives = 81/181 (44%), Gaps = 17/181 (9%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S +   K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+D
Sbjct: 2   SHMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFD 60
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P                   SF N   KW+ E+ T        +LVG +
Sbjct: 61  TAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQ 119
Query: 124 TDL------VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAA 169
            DL      +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AA
Sbjct: 120 IDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 179
Query: 170 L 170
           L
Sbjct: 180 L 180

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++     L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGEICLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 73
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 74  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 132
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 133 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 187

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 64
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 65  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 123
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 124 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 178

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 67
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 68  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 126
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 127 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 181

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVXIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAAL 177

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 65
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 124
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 125 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 179

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAAL 177

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
            QE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  AQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 53/186 (28%), Positives = 82/186 (44%), Gaps = 35/186 (18%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65
Query: 71  FRSLIP-SYIRXXXXXXXXXXXXXRQ------------------SFLNT-SKWIDEVRTE 110
           +  L P SY +              +                  SF N  +KW  EVR  
Sbjct: 66  YDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVR-H 124
Query: 111 RGSDVIIVLVGNKTDL------VEKRQ------VSIEEGEAKSRELN-VMFIETSAKAGF 157
              +  I+LVG K DL      +EK +      ++  +G A ++E+  V ++E SA    
Sbjct: 125 HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 184
Query: 158 NIKPLF 163
            +K +F
Sbjct: 185 GLKTVF 190

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 81/158 (51%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F +    TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           GQE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK+D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
            QE + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  AQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDVAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GVEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 52/181 (28%), Positives = 80/181 (44%), Gaps = 17/181 (9%)
Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           S +   K V +GD +VGK  ++  +  +KF + Y  T+  D  + T+ +      L L+D
Sbjct: 6   SGMQTIKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFD 64
Query: 65  TAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P                   SF N   KW+ E+ T        +LVG +
Sbjct: 65  TAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQ 123
Query: 124 TDL------VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAA 169
            DL      +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AA
Sbjct: 124 IDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 183
Query: 170 L 170
           L
Sbjct: 184 L 184

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GIEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 3/158 (1%)
Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETXLLDILDTA 59
Query: 67  GQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTD 125
           G E + ++   Y+R              +SF +  ++ +++ R +   DV +VLVGNK D
Sbjct: 60  GGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119
Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
           L   R V   + +  +R   + +IETSAK    ++  F
Sbjct: 120 LA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAF 156

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 78/175 (44%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y   +  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPAV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 52/175 (29%), Positives = 78/175 (44%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLRDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 78/175 (44%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +K  + Y  T+  D  + T+ +      L L+DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKLPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 40/156 (25%), Positives = 75/156 (48%), Gaps = 2/156 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G+  VGK+++   F   + D+ ++     D   + + ++   V L ++D   Q 
Sbjct: 3   FKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQG 62
Query: 70  RFRSLIPSY-IRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLV 127
                +  + ++             R+SF    + +  +R  R   D+ ++LVGNK+DL 
Sbjct: 63  DAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA 122
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
             R+VS+EEG   +  L+   IETSA    N + LF
Sbjct: 123 RSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 158

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 78/175 (44%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAG E 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGLED 67
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 68  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 126
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 127 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 181

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 78/175 (44%), Gaps = 17/175 (9%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAG E 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTV-FDNYAVTVMIGGEPYTLGLFDTAGLED 63
Query: 71  FRSLIPSYIRXXXXXXXXXXXXXRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDL--- 126
           +  L P                   SF N   KW+ E+ T        +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 122
Query: 127 ---VEK------RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF-RKIAAAL 170
              +EK      + ++ E  E  +R+L  V ++E SA     +K +F   I AAL
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 42/158 (26%), Positives = 76/158 (48%), Gaps = 8/158 (5%)
Query: 4   VSALAKYKLVFLGDQSVGKTSIITRFMY--DKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           ++A  + K+  +G+ +VGK+++I+ F     KF   Y  T G++ +   + + D TV ++
Sbjct: 15  ITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVE 74
Query: 62  LW--DTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWID---EVRTERGSDVI 116
           L+  DTAG + ++  I  Y                +SF +   W +     R +R   + 
Sbjct: 75  LFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLR 134
Query: 117 IVLVGNKTDLVEKR-QVSIEEGEAKSRELNVMFIETSA 153
            VLV NKTDL  +R QV ++  +  +    + F + SA
Sbjct: 135 AVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSA 172

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/156 (25%), Positives = 75/156 (48%), Gaps = 2/156 (1%)
Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G+  VGK+++   F   + D+ ++     D   + + ++   V L ++D   Q 
Sbjct: 24  FKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQG 83
Query: 70  RFRSLIPSY-IRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLV 127
                +  + ++             R+SF    + +  +R  R   D+ ++LVGNK+DL 
Sbjct: 84  DAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA 143
Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
             R+VS+EEG   +  L+   IETSA    N + LF
Sbjct: 144 RSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 179

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/179 (25%), Positives = 85/179 (47%), Gaps = 19/179 (10%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           AP   +A+ KLV +GD   GKT+++     D +  TY  T+  ++ +  +  E++ V L 
Sbjct: 3   APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 61
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS--KWIDEVRTERGSDVIIVL 119
           LWDT+G   + ++ P                 R   ++++  KW  E+  +      ++L
Sbjct: 62  LWDTSGSPYYDNVRP-LCYSDSDAVLLCFDISRPETVDSALKKWRTEI-LDYCPSTRVLL 119
Query: 120 VGNKTDL------------VEKRQVSIEEGEAKSRELNV-MFIETSA-KAGFNIKPLFR 164
           +G KTDL             ++  +S E+G A +++L   +++E SA  +  +I  +FR
Sbjct: 120 IGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFR 178

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/179 (25%), Positives = 85/179 (47%), Gaps = 19/179 (10%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           AP   +A+ KLV +GD   GKT+++     D +  TY  T+  ++ +  +  E++ V L 
Sbjct: 4   APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 62
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS--KWIDEVRTERGSDVIIVL 119
           LWDT+G   + ++ P                 R   ++++  KW  E+  +      ++L
Sbjct: 63  LWDTSGSPYYDNVRP-LCYSDSDAVLLCFDISRPETVDSALKKWRTEI-LDYCPSTRVLL 120
Query: 120 VGNKTDL------------VEKRQVSIEEGEAKSRELNV-MFIETSA-KAGFNIKPLFR 164
           +G KTDL             ++  +S E+G A +++L   +++E SA  +  +I  +FR
Sbjct: 121 IGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFR 179

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/179 (25%), Positives = 85/179 (47%), Gaps = 19/179 (10%)
Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           AP   +A+ KLV +GD   GKT+++     D +  TY  T+  ++ +  +  E++ V L 
Sbjct: 20  APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 78
Query: 62  LWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTS--KWIDEVRTERGSDVIIVL 119
           LWDT+G   + ++ P                 R   ++++  KW  E+  +      ++L
Sbjct: 79  LWDTSGSPYYDNVRP-LCYSDSDAVLLCFDISRPETVDSALKKWRTEI-LDYCPSTRVLL 136
Query: 120 VGNKTDL------------VEKRQVSIEEGEAKSRELNV-MFIETSA-KAGFNIKPLFR 164
           +G KTDL             ++  +S E+G A +++L   +++E SA  +  +I  +FR
Sbjct: 137 IGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFR 195

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 78/161 (48%), Gaps = 20/161 (12%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K K+V +GD   GKT+++  F  D F   Y  T+  ++ + +  ++ + + L LWDT+G 
Sbjct: 28  KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGS 86
Query: 69  ERFRSLIP-SYIRXXXXXXXXXXXXXRQSFLNT--SKWIDEVRTERGSDVIIVLVGNKTD 125
             + ++ P SY               R   L++   KW  E++ E   +  ++LVG K+D
Sbjct: 87  PYYDNVRPLSY--PDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSD 143
Query: 126 -------LVE---KRQ--VSIEEGEAKSRELNVM-FIETSA 153
                  LVE    RQ  VS ++G   ++++    +IE SA
Sbjct: 144 LRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA 184

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 78/161 (48%), Gaps = 20/161 (12%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K K+V +GD   GKT+++  F  D F   Y  T+  ++ + +  ++ + + L LWDT+G 
Sbjct: 7   KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGS 65
Query: 69  ERFRSLIP-SYIRXXXXXXXXXXXXXRQSFLNT--SKWIDEVRTERGSDVIIVLVGNKTD 125
             + ++ P SY               R   L++   KW  E++ E   +  ++LVG K+D
Sbjct: 66  PYYDNVRPLSY--PDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSD 122
Query: 126 -------LVE---KRQ--VSIEEGEAKSRELNVM-FIETSA 153
                  LVE    RQ  VS ++G   ++++    +IE SA
Sbjct: 123 LRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA 163

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 78/161 (48%), Gaps = 20/161 (12%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K K+V +GD   GKT+++  F  D F   Y  T+  ++ + +  ++ + + L LWDT+G 
Sbjct: 23  KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGS 81
Query: 69  ERFRSLIP-SYIRXXXXXXXXXXXXXRQSFLNT--SKWIDEVRTERGSDVIIVLVGNKTD 125
             + ++ P SY               R   L++   KW  E++ E   +  ++LVG K+D
Sbjct: 82  PYYDNVRPLSY--PDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSD 138
Query: 126 -------LVE---KRQ--VSIEEGEAKSRELNVM-FIETSA 153
                  LVE    RQ  VS ++G   ++++    +IE SA
Sbjct: 139 LRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA 179

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 33/127 (25%), Positives = 59/127 (46%), Gaps = 7/127 (5%)
Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDN--TYQATIGIDFLSKTMYLEDRTVR---LQLWDT 65
           KL  +G+   GKT+++ +    K  +     AT+GID     + + D+  R   L +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 66  AGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSK-WIDEVRTERGSDVIIVLVGNKT 124
           AG+E F S  P +                Q+ ++  K W+  ++  R S   ++LVG   
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKA-RASSSPVILVGTHL 120
Query: 125 DLVEKRQ 131
           D+ +++Q
Sbjct: 121 DVSDEKQ 127

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 33/129 (25%), Positives = 60/129 (46%), Gaps = 7/129 (5%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDN--TYQATIGIDFLSKTMYLEDRTVR---LQLW 63
           + KL  +G+   GKT+++ +    K  +     AT+GID     + + D+  R   L +W
Sbjct: 2   RXKLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVW 61
Query: 64  DTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSK-WIDEVRTERGSDVIIVLVGN 122
           D AG+E F S  P +                Q+ ++  K W+  ++  R S   ++LVG 
Sbjct: 62  DFAGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKA-RASSSPVILVGT 120
Query: 123 KTDLVEKRQ 131
             D+ +++Q
Sbjct: 121 HLDVSDEKQ 129

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +L+ LG  + GKT+I+ +F  +  D T   T+G +   KT  LE R  +L +WD  GQ
Sbjct: 16  ELRLLMLGLDNAGKTTILKKFNGEDID-TISPTLGFNI--KT--LEHRGFKLNIWDVGGQ 70
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRT-ERGSDVIIVLVGNKTDL 126
           +  RS   +Y               RQ   +  + +  +   ER +   +++  NK DL
Sbjct: 71  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 129

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +L+ LG  + GKT+I+ +F  +  D T   T+G +   KT  LE R  +L +WD  GQ
Sbjct: 18  ELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNI--KT--LEHRGFKLNIWDVGGQ 72
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRT-ERGSDVIIVLVGNKTDL 126
           +  RS   +Y               RQ   +  + +  +   ER +   +++  NK DL
Sbjct: 73  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 131

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +L+ LG  + GKT+I+ +F  +  D T   T+G +   KT  LE R  +L +WD  GQ
Sbjct: 18  ELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNI--KT--LEHRGFKLNIWDVGGQ 72
Query: 69  ERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRT-ERGSDVIIVLVGNKTDL 126
           +  RS   +Y               RQ   +  + +  +   ER +   +++  NK DL
Sbjct: 73  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 131

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 4/80 (5%)
Query: 1  MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
          + P  +  + +L  +G Q  GKT+ +      +F+     T+G +    T       V +
Sbjct: 14 LVPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKIT----KGNVTI 69
Query: 61 QLWDTAGQERFRSLIPSYIR 80
          +LWD  GQ RFRS+   Y R
Sbjct: 70 KLWDIGGQPRFRSMWERYCR 89

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 51/127 (40%), Gaps = 5/127 (3%)
Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           + P  +  + +L  +G Q  GKT+ +      +F      T+G +    T       V +
Sbjct: 14  LVPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVGFNMRKVT----KGNVTI 69
Query: 61  QLWDTAGQERFRSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVRTERGSDVIIVLV 120
           ++WD  GQ RFRS+   Y R             R+    +   +  +  +     I VLV
Sbjct: 70  KIWDIGGQPRFRSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLV 129
Query: 121 -GNKTDL 126
            GNK DL
Sbjct: 130 LGNKRDL 136

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 40/158 (25%), Positives = 76/158 (48%), Gaps = 6/158 (3%)
Query: 12  LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF 71
           L  LG +  GK+++  +F+  +F + Y   +  D  S    ++ + V L++ DTA  +  
Sbjct: 24  LAILGRRGAGKSALTVKFLTKRFISEYDPNLE-DTYSSEETVDHQPVHLRVMDTADLDTP 82
Query: 72  RSLIPSYIRXXXXXXXXXXXXXRQSFLNTSKWIDEVR---TERGSDVIIVLVGNKTDLVE 128
           R+    Y+              RQSF ++S +++ +     E    +  +L+GNK D+ +
Sbjct: 83  RN-CERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQ 141
Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGF-NIKPLFRK 165
            RQV+  EG A +     +F E SA   F +++ +F +
Sbjct: 142 YRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHE 179

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	208
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-107
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-104
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-96
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	2e-96
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	8e-95
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-94
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	3e-90
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	2e-89
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-87
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-85
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	7e-78
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-77
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	4e-77
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	8e-77
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	4e-76
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	9e-76
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	4e-75
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	5e-73
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	8e-73
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	2e-72
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	3e-72
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	5e-72
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	5e-72
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	6e-72
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	9e-72
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	9e-72
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-71
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	2e-71
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	2e-71
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	2e-71
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	4e-71
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	4e-71
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	5e-71
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	7e-71
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	8e-71
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-70
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-70
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-70
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	5e-70
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-69
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	4e-69
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	5e-69
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	8e-69
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	8e-69
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	4e-68
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	6e-68
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-67
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-67
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	4e-67
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	3e-65
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	5e-65
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	6e-65
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	7e-65
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	4e-64
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	4e-64
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	7e-64
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	8e-64
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	3e-62
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	2e-61
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	9e-61
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-60
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	7e-60
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	3e-59
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	6e-58
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	8e-58
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	2e-57
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	1e-56
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	5e-56
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	1e-51
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	1e-49
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	4e-48
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	7e-44
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	7e-43
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	1e-42
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	3e-42
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	4e-42
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	3e-41
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	3e-41
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	4e-41
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	1e-39
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	3e-39
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	4e-38
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-37
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	1e-25
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-25
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	3e-17
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	2e-14
3llu_A	196	RAS-related GTP-binding protein C; structural geno	6e-14
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	3e-12
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	4e-12
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	4e-12
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	5e-12
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	7e-12
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	1e-11
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	2e-11
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	2e-11
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	2e-11
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	6e-11
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	6e-11
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	6e-11
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	2e-10
2fh5_B	214	SR-beta, signal recognition particle receptor beta	3e-10
2ged_A	193	SR-beta, signal recognition particle receptor beta	7e-10
1nrj_B	218	SR-beta, signal recognition particle receptor beta	1e-09
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	3e-07
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	7e-07
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	1e-06
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	1e-06
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	4e-06
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
2wji_A	165	Ferrous iron transport protein B homolog; membrane	5e-05
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	7e-05
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	7e-05
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	2e-04
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	2e-04
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	2e-04
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	4e-04
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	4e-04
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	4e-04
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	6e-04
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	6e-04
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	6e-04
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	7e-04

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  306 bits (786), Expect = e-107
 Identities = 149/204 (73%), Positives = 171/204 (83%), Gaps = 5/204 (2%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWD
Sbjct: 12  NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 71

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAG ERFRSLIPSYIRDS+VAVVVYD+ +  SF  T+KWID+VRTERGSDVII+LVGNKT
Sbjct: 72  TAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT 131

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM 184
           DL +KRQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGME+     +E+M
Sbjct: 132 DLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDM 191

Query: 185 VDVNLRSTTGNASQSQSQSSGCSC 208
           +D+ L        Q Q  S G   
Sbjct: 192 IDIKL-----EKPQEQPVSEGGCL 210

>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* Length = 179

 Score =  296 bits (760), Expect = e-104
 Identities = 141/168 (83%), Positives = 157/168 (93%)

Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           L K+KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA
Sbjct: 12  LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 71

Query: 67  GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQERFRSLIPSYIRDS+VAVVVYD+ +  SF  TSKWID+VRTERGSDVII+LVGNKTDL
Sbjct: 72  GQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDL 131

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
            +KRQVS EEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGM+
Sbjct: 132 SDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMD 179

>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 Length = 192

 Score =  278 bits (713), Expect = 1e-96
 Identities = 65/174 (37%), Positives = 107/174 (61%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           +   SA+ + K+  LGD  VGK+SI+ RF+ D FD+    TIG  F++KT+   +   + 
Sbjct: 15  VPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKF 74

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
            +WDTAGQERF SL P Y R S+ AV+VYD+  + SF    KW+ E++     ++++ + 
Sbjct: 75  LIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIA 134

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
           GNK DL + R+V +++ +  +  +  + +ETSAK   NI+ LF+ I+  +P ++
Sbjct: 135 GNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLD 188

>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* Length = 181

 Score =  277 bits (711), Expect = 2e-96
 Identities = 67/170 (39%), Positives = 113/170 (66%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
             KLV LGD   GK+S++ RF+ D+F    ++TIG  F S+T+ + D TV+ ++WDTAGQ
Sbjct: 12  NAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQ 71

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ER+ SL P Y R ++ A++V+DV ++ SF    KW+ E++ +   ++++ L GNK+DL++
Sbjct: 72  ERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLD 131

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSS 178
            R+V+ E+ +  ++E  + F+ETSAK   N+K +F +IA  LP ++   +
Sbjct: 132 ARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTEN 181

>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* Length = 170

 Score =  272 bits (699), Expect = 8e-95
 Identities = 64/167 (38%), Positives = 101/167 (60%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           SAL + K+  LGD  VGK+SI+ RF+ D FD     TIG  F++KT+  ++   +  +WD
Sbjct: 2   SALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWD 61

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAG ERFR+L P Y R S+ A++VYD+   ++F     W+ E+R      +++ + GNK 
Sbjct: 62  TAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKC 121

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           DL + R+V   + +  +  ++ +F+ETSAK   NI  LF +I+  +P
Sbjct: 122 DLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 168

>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* Length = 170

 Score =  272 bits (697), Expect = 1e-94
 Identities = 67/167 (40%), Positives = 111/167 (66%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           + + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WD
Sbjct: 2   NKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWD 61

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
           TAGQER+ SL P Y R +  A+VVYD+ + +SF     W+ E++ +   +++I L GNK 
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           DL  KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>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* Length = 170

 Score =  260 bits (668), Expect = 3e-90
 Identities = 63/162 (38%), Positives = 100/162 (61%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V LG+  VGKTS++ R+  +KF++ +  T+G  FL+K + +  + V L +WDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQE 66

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RF +L P Y RDS+ A++VYD+    SF     W+ E+R   G+++ + +VGNK DL ++
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           R VSI+E E+ +  +      TSAK    I+ LF  +   + 
Sbjct: 127 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  259 bits (665), Expect = 2e-89
 Identities = 57/170 (33%), Positives = 89/170 (52%), Gaps = 4/170 (2%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR-TVRLQLWDTAG 67
           + K+V LGD + GKTS+ T F  + F   Y+ TIG+DF  + + L     V LQ+WD  G
Sbjct: 6   QLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGG 65

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW---IDEVRTERGSDVIIVLVGNKT 124
           Q     ++  YI  +   ++VYD+ + QSF N   W   + +V  E  +  ++ LVGNK 
Sbjct: 66  QTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKI 125

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGME 174
           DL   R +  E+     +E        SAK G ++   F+K+AA + G++
Sbjct: 126 DLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIK 175

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  254 bits (651), Expect = 1e-87
 Identities = 59/161 (36%), Positives = 91/161 (56%), Gaps = 1/161 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K+V +G+ +VGK+S+I R+    F   Y+ TIG+DFL + + + D  VRL LWDTAGQE
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            F ++  +Y R +   V+V+    R+SF   S W ++V  E   D+   LV NK DL++ 
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDD 124

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
             +  EE E  ++ L + F  TS K   N+  +F+ +A   
Sbjct: 125 SCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 165

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  250 bits (640), Expect = 2e-85
 Identities = 68/203 (33%), Positives = 108/203 (53%), Gaps = 8/203 (3%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ LGD  VGKTS++ +++  KF N Y+ATIG DFL+K + ++DR V +Q+WDTAGQE
Sbjct: 9   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 68

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRT----ERGSDVIIVLVGNKTD 125
           RF+SL  ++ R +   V+V+DV +  +F     W DE           +   V++GNK D
Sbjct: 69  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 128

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMV 185
           L  ++  +         + N+ + ETSAK   N++  F+ IA      ET      E   
Sbjct: 129 LENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFPE 188

Query: 186 DVNLRSTTGNASQSQSQSSGCSC 208
            + L        ++++ +  CSC
Sbjct: 189 PIKL----DKNERAKASAESCSC 207

>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 Length = 170

 Score =  230 bits (587), Expect = 7e-78
 Identities = 72/168 (42%), Positives = 107/168 (63%), Gaps = 3/168 (1%)

Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           +   KLV LG+ +VGK+SI+ RF+ + F    + TIG  FL++ + + + TV+ ++WDTA
Sbjct: 1   VTSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTA 60

Query: 67  GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQERF SL P Y R++  A+VVYDV   QSF+    W+ E+  +   D+II LVGNK D 
Sbjct: 61  GQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDX 120

Query: 127 VE---KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           ++   +R+V+ EEGE  + E  ++F ETSAK G N+  +F  I   +P
Sbjct: 121 LQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIP 168

>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} Length = 199

 Score =  229 bits (586), Expect = 2e-77
 Identities = 65/167 (38%), Positives = 93/167 (55%), Gaps = 6/167 (3%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YK+V  GD +VGK+S + R   ++F     AT+G+DF  KT+ ++     LQLWDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV-- 127
           RFRS+  SY R +   +++YDV   +SFLN  +W+D +       V I+LVGNK D+   
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDT 148

Query: 128 ----EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
                ++ V    GE  +     +F ETSAK G NI      +A  +
Sbjct: 149 AATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREV 195

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  229 bits (585), Expect = 4e-77
 Identities = 70/162 (43%), Positives = 110/162 (67%), Gaps = 1/162 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD SVGKT ++ RF    F     +TIG+DF  KT+ ++ + V+LQ+WDTAGQE
Sbjct: 30  FKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQE 89

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R ++ A++ YD+  R SFL+   WI++VR   GS+++ +L+GNK+DL E 
Sbjct: 90  RFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL 149

Query: 130 RQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKIAAAL 170
           R+VS+ E ++ +   +++  IETSAK   N++  F ++A  L
Sbjct: 150 REVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATEL 191

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  229 bits (585), Expect = 8e-77
 Identities = 49/172 (28%), Positives = 88/172 (51%), Gaps = 3/172 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +F  L   Y   +  A++++DV SR ++ N   W  ++      ++ IVL GNK D+ ++
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDR 134

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQ 181
           +     +     R+ N+ + + SAK+ +N +  F  +A  L G   L     
Sbjct: 135 KVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAM 184

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  227 bits (580), Expect = 4e-76
 Identities = 51/195 (26%), Positives = 92/195 (47%), Gaps = 1/195 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIG-IDFLSKTMYLEDRTVRLQLWDTAGQ 68
           YK+  +GD  VGKT+ I R +  +F+  Y AT+G ++     +  +   ++  +WDTAGQ
Sbjct: 12  YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQ 71

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           E+   L   Y   +S A++ +DV SR +  N ++W+ E +   G++  IV+  NK D+  
Sbjct: 72  EKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKN 131

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVN 188
           ++++S +      +  N  + E SAK   N    F  +A    G   L       +    
Sbjct: 132 RQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSNVNLEPTE 191

Query: 189 LRSTTGNASQSQSQS 203
           +     +  +S+   
Sbjct: 192 VNYDYHSPEESKYID 206

>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* Length = 206

 Score =  226 bits (577), Expect = 9e-76
 Identities = 74/200 (37%), Positives = 113/200 (56%), Gaps = 3/200 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+  VGK+ ++ RF  D + N Y +TIG+DF  KT+ L+ +TV+LQ+WDTAGQE
Sbjct: 9   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 68

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R S   ++VYDV  ++SF     W+ E+     S V+ +LVGNK DL +K
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNL 189
           R V  +  +  +    + F+ETSA    N++  F  +A  +   E++S     E      
Sbjct: 129 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQI--KESMSQQNLNETTQKKE 186

Query: 190 RSTTGN-ASQSQSQSSGCSC 208
                N   QS + + GC C
Sbjct: 187 DKGNVNLKGQSLTNTGGCCC 206

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  224 bits (573), Expect = 4e-75
 Identities = 51/182 (28%), Positives = 91/182 (50%), Gaps = 11/182 (6%)

Query: 1   MAPVSALAKY--KLVFLGDQSVGKTSIITRFMY--DKFDNTYQATIGIDFLSKTMYLEDR 56
           + P+   A    K+  +G+ +VGK+++I+ F     KF   Y  T G++ +   + + D 
Sbjct: 10  VKPIDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDT 69

Query: 57  TVRLQLW--DTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-- 112
           TV ++L+  DTAG + ++  I  Y      A++V+DV+S +SF +   W + +++ R   
Sbjct: 70  TVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDR 129

Query: 113 -SDVIIVLVGNKTDLVEKR-QVSIEEGEAKSRELNVMFIETSAKA-GFNIKPLFRKIAAA 169
              +  VLV NKTDL  +R QV ++  +  +    + F + SA   G +    F  IA  
Sbjct: 130 ERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATT 189

Query: 170 LP 171
             
Sbjct: 190 FY 191

>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* Length = 189

 Score =  218 bits (557), Expect = 5e-73
 Identities = 61/161 (37%), Positives = 103/161 (63%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  D+ ++LQ+WDTAGQE
Sbjct: 23  FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQE 82

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +   +++YD+A+++SF     W  +++T    +  ++LVGNK DL ++
Sbjct: 83  RYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDE 142

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V  E+G   + +L   F E SAK   N+K +F ++   +
Sbjct: 143 RVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVI 183

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  216 bits (554), Expect = 8e-73
 Identities = 41/162 (25%), Positives = 78/162 (48%), Gaps = 2/162 (1%)

Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
             +K++ +G+  VGK+++   F   + D+ ++     D   + + ++   V L ++D   
Sbjct: 1   GVFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWE 60

Query: 68  QERFRSLIPS-YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTD 125
           Q      +    ++     ++V+ V  R+SF    + +  +R  R    + ++LVGNK+D
Sbjct: 61  QGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSD 120

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           L   R+VS+EEG   +  L+   IETSA    N + LF    
Sbjct: 121 LARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAV 162

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  216 bits (552), Expect = 2e-72
 Identities = 64/168 (38%), Positives = 96/168 (57%), Gaps = 7/168 (4%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQ 68
            K++ LGD  VGKTS++ R++ DK+   Y+ATIG DFL+K + ++ D+   +Q+WDTAGQ
Sbjct: 9   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 68

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRT----ERGSDVIIVLVGNKT 124
           ERF+SL  ++ R +   V+VYDV +  SF N   W DE               V++GNK 
Sbjct: 69  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKI 128

Query: 125 DLVE-KRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKIAAAL 170
           D  E K+ VS +  +  ++ L  +    TSAK   N+   F +IA + 
Sbjct: 129 DAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 176

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  216 bits (553), Expect = 3e-72
 Identities = 61/193 (31%), Positives = 117/193 (60%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAGQE
Sbjct: 6   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 65

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R +  +Y R +  A++VYD+A   ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 66  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 125

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNL 189
           R V  +E  A + + N+ FIETSA    N++  F+ I   +  + +          D + 
Sbjct: 126 RAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAHDESP 185

Query: 190 RSTTGNASQSQSQ 202
            +   + S   + 
Sbjct: 186 GNNVVDISVPPTT 198

>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* Length = 191

 Score =  215 bits (551), Expect = 5e-72
 Identities = 57/161 (35%), Positives = 108/161 (67%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAG E
Sbjct: 30  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 89

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +  A++VYD+A   ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 90  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V  +E  A + +  + FIETSA    N++  F+ I   +
Sbjct: 150 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  216 bits (553), Expect = 5e-72
 Identities = 59/209 (28%), Positives = 115/209 (55%), Gaps = 10/209 (4%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++T+ +E + ++ Q+WDTAGQE
Sbjct: 14  FKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQE 73

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +  A++VYD++   S+ N + W+ E+R     +V + L+GNK+DL   
Sbjct: 74  RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHL 133

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL----------PGMETLSST 179
           R V  EE +  ++E  ++F ETSA    N+   F ++   +           G  + +  
Sbjct: 134 RAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSANGN 193

Query: 180 KQEEMVDVNLRSTTGNASQSQSQSSGCSC 208
                       +         +++G +C
Sbjct: 194 ANGASAPNGPTISLTPTPNENKKANGNNC 222

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  215 bits (551), Expect = 6e-72
 Identities = 65/161 (40%), Positives = 102/161 (63%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 34  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 93

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R +   +VVYDV  ++SF N  +W+ E+      +V  +LVGNK DL  K
Sbjct: 94  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 153

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 154 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 194

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  215 bits (550), Expect = 9e-72
 Identities = 63/201 (31%), Positives = 100/201 (49%), Gaps = 40/201 (19%)

Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTV--------- 58
           + YK V LG+ SVGK+SI+ R   D F      TIG  F +  + L D  +         
Sbjct: 6   SSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKN 65

Query: 59  ----------------------------RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD 90
                                       +  +WDTAGQER+ S++P Y R ++ A+VV+D
Sbjct: 66  NNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFD 125

Query: 91  VASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIE 150
           +++  +      W+++++    S+ II+LV NK D   K QV I E +  +++ N++FI+
Sbjct: 126 ISNSNTLDRAKTWVNQLKIS--SNYIIILVANKIDK-NKFQVDILEVQKYAQDNNLLFIQ 182

Query: 151 TSAKAGFNIKPLFRKIAAALP 171
           TSAK G NIK +F  +A  + 
Sbjct: 183 TSAKTGTNIKNIFYMLAEEIY 203

>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* Length = 179

 Score =  214 bits (548), Expect = 9e-72
 Identities = 57/161 (35%), Positives = 101/161 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   KF      TIG++F ++ + +  + ++LQ+WDTAGQE
Sbjct: 16  FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQE 75

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R ++ A++VYD+  R ++ + S W+ + R     + +I+L+GNK DL  +
Sbjct: 76  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 135

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V+ EE +  + E  ++F+E SAK G N++  F + A  +
Sbjct: 136 RDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176

>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 Length = 201

 Score =  214 bits (548), Expect = 2e-71
 Identities = 67/161 (41%), Positives = 100/161 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +G+  VGKT ++ RF    F     ATIG+DF+ KT+ +    V+LQ+WDTAGQE
Sbjct: 27  FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE 86

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R ++  ++ YD+   +SF    +W+ E+     + VI VLVGNK DL E+
Sbjct: 87  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 146

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+VS +  E  S   ++ ++ETSAK   N++ LF  +A  L
Sbjct: 147 REVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 187

>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* Length = 186

 Score =  213 bits (546), Expect = 2e-71
 Identities = 59/161 (36%), Positives = 102/161 (63%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G+   GK+ ++ +F+  KF +    TIG++F SK + +  + V+LQ+WDTAGQE
Sbjct: 11  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 70

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R ++ A++VYD+ SR+++   + W+ + R     +++I+L GNK DL   
Sbjct: 71  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 130

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+V+  E    ++E  +MF+ETSA  G N++  F + A  +
Sbjct: 131 REVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKI 171

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  214 bits (548), Expect = 2e-71
 Identities = 61/194 (31%), Positives = 102/194 (52%), Gaps = 1/194 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  D+ ++LQ+WDTAG E
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +   +++YD+ + +SF     W  +++T    +  ++LVGNK D+ ++
Sbjct: 69  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 128

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA-LPGMETLSSTKQEEMVDVN 188
           R VS E G   +  L   F E SAK   N+K  F ++       M     T    +    
Sbjct: 129 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTADPAVTGAK 188

Query: 189 LRSTTGNASQSQSQ 202
                 +      Q
Sbjct: 189 QGPQLTDQQAPPHQ 202

>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} Length = 193

 Score =  214 bits (546), Expect = 2e-71
 Identities = 52/161 (32%), Positives = 101/161 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +G+  VGKT++++RF  ++F +  + TIG++F ++T+ L    V+ Q+WDTAG E
Sbjct: 26  FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLE 85

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +  A++V+D+   Q++    +W+ E+     + ++++LVGNK+DL + 
Sbjct: 86  RYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA 145

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+V  EE    +    ++F+ETSA    N++  F  +   +
Sbjct: 146 REVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEI 186

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  214 bits (546), Expect = 4e-71
 Identities = 60/161 (37%), Positives = 105/161 (65%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G    GK+ ++ +F+ +KF      TIG++F S+ + +  +TV+LQ+WDTAGQE
Sbjct: 26  FKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQE 85

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R ++ A++VYD+ SR+++ + + W+ + RT    +++++L GNK DL  +
Sbjct: 86  RFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPE 145

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+V+  E    ++E  +MF+ETSA  G N++  F K A  +
Sbjct: 146 REVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTI 186

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  213 bits (545), Expect = 4e-71
 Identities = 65/161 (40%), Positives = 102/161 (63%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+ ++ RF  D +  +Y +TIG+DF  +T+ L+ +T++LQ+WDTAGQE
Sbjct: 17  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 76

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R +   +VVYDV  ++SF N  +W+ E+      +V  +LVGNK DL  K
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           + V     +  +  L + F+ETSAK   N++  F  +AA +
Sbjct: 137 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>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* Length = 183

 Score =  213 bits (544), Expect = 5e-71
 Identities = 67/161 (41%), Positives = 107/161 (66%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGKT ++ RF  D F++T+ +TIGIDF  +T+ L+ + ++LQ+WDTAGQE
Sbjct: 9   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 68

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R +   ++VYD+ + +SF N   WI  +     +DV  +++GNK D+ +K
Sbjct: 69  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 128

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           RQVS E GE  + +  + F+ETSAKA  N++  F  +A  +
Sbjct: 129 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDI 169

>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 Length = 213

 Score =  213 bits (545), Expect = 7e-71
 Identities = 72/193 (37%), Positives = 119/193 (61%), Gaps = 4/193 (2%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQLWDTAGQE
Sbjct: 21  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE 80

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R +   ++VYDV   ++F N  +W   V      +  ++LVGNK+D+ E 
Sbjct: 81  RFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ET 139

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL---PGMETLSSTKQEEMVD 186
           R V+ ++GEA ++EL + FIE+SAK   N+  +F  +A  +        L      +  +
Sbjct: 140 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGVGNGKEGN 199

Query: 187 VNLRSTTGNASQS 199
           +++ S +GN+S+S
Sbjct: 200 ISINSGSGNSSKS 212

>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* Length = 191

 Score =  212 bits (543), Expect = 8e-71
 Identities = 61/161 (37%), Positives = 108/161 (67%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   +F   +  TIG++F ++ + ++ + ++LQ+WDTAGQE
Sbjct: 22  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE 81

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            FRS+  SY R ++ A++VYD+  R++F + + W+++ R    S+++I+L+GNK+DL  +
Sbjct: 82  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR 141

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V  EEGEA +RE  ++F+ETSAK   N++  F   A  +
Sbjct: 142 RDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEI 182

>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} Length = 191

 Score =  212 bits (541), Expect = 1e-70
 Identities = 59/161 (36%), Positives = 102/161 (63%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  ++ V+LQ+WDTAGQE
Sbjct: 24  FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQE 83

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +   +++YD+ + +SF     W  +++T    +  ++LVGNK D+ E+
Sbjct: 84  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE 143

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V  E+G+  + +L   F E SAK   +++  F ++  A+
Sbjct: 144 RVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAI 184

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  211 bits (540), Expect = 2e-70
 Identities = 63/174 (36%), Positives = 103/174 (59%), Gaps = 3/174 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGK+S++ RF  + F  +Y  TIG+DF  +T+ +    V+LQ+WDTAGQE
Sbjct: 10  FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQE 69

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R +   +VVYDV S +SF+N  +W+ E+  +   DV  +LVGNK D  E+
Sbjct: 70  RFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEIN-QNCDDVCRILVGNKNDDPER 128

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEE 183
           + V  E+    + ++ +   ETSAK   N++ +F  I   +  +        ++
Sbjct: 129 KVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELV--LRAKKDNLAKQ 180

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  210 bits (538), Expect = 2e-70
 Identities = 64/161 (39%), Positives = 105/161 (65%), Gaps = 1/161 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQ+WDTAGQE
Sbjct: 4   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 63

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R +   ++VYD+   ++F N  +W   V      +  ++LVGNK+D+ E 
Sbjct: 64  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ET 122

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V+ ++GEA ++EL + FIE+SAK   N+  +F  +A  +
Sbjct: 123 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLI 163

>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 Length = 180

 Score =  210 bits (537), Expect = 5e-70
 Identities = 67/162 (41%), Positives = 102/162 (62%), Gaps = 1/162 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +K++ +GD  VGKT ++ RF    F   T+ +T+GIDF +K + ++   V+LQ+WDTAGQ
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 70

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ERFRS+  +Y RD+   +++YDV ++ SF N   W+ E+      DV ++L+GNK D   
Sbjct: 71  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH 130

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           +R V  E+GE  ++E  + F+ETSAK G N+   F  IA  L
Sbjct: 131 ERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  209 bits (535), Expect = 1e-69
 Identities = 57/162 (35%), Positives = 100/162 (61%), Gaps = 1/162 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            +++ +G + VGKTS++ RF  D F    ++T+G+DF  KT+ L  + +RLQ+WDTAGQE
Sbjct: 27  LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 86

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RF S+  +Y R +   ++VYD+  +++F +  KW+  +      D  ++LVGNK D    
Sbjct: 87  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD 146

Query: 130 RQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRKIAAAL 170
           R+++ ++GE  ++++  + F E SAK  FN+  +F K+   +
Sbjct: 147 REITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI 188

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  208 bits (531), Expect = 4e-69
 Identities = 66/172 (38%), Positives = 98/172 (56%), Gaps = 8/172 (4%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA  S+L  +K++ LGD  VGK+S++ R++ +KFD     TIG++FL+K + ++   V +
Sbjct: 1   MAGKSSL--FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTM 58

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRT----ERGSDVI 116
           Q+WDTAGQERFRSL   + R S   ++ + V   QSF N S W  E       +      
Sbjct: 59  QIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP 118

Query: 117 IVLVGNKTDLVEKRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKIA 167
            V++GNK D+  +RQVS EE +A  R+     + ETSAK   N+   F +  
Sbjct: 119 FVILGNKIDI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAV 169

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  208 bits (532), Expect = 5e-69
 Identities = 41/160 (25%), Positives = 78/160 (48%), Gaps = 2/160 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G+  VGK+++   F   + D+ ++     D   + + ++   V L ++D   Q 
Sbjct: 24  FKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQG 83

Query: 70  RFRSLIPS-YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLV 127
                +    ++     ++V+ V  R+SF    + +  +R  R    + ++LVGNK+DL 
Sbjct: 84  DAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA 143

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
             R+VS+EEG   +  L+   IETSA    N + LF    
Sbjct: 144 RSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAV 183

>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* Length = 189

 Score =  207 bits (529), Expect = 8e-69
 Identities = 58/166 (34%), Positives = 96/166 (57%), Gaps = 5/166 (3%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD +VGKT +  RF   +F +  +ATIG+DF  + + ++   +++QLWDTAGQE
Sbjct: 21  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 80

Query: 70  RFR-SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLV 127
           RFR S++  Y R+    V VYD+ +  SF +   WI+E +     +D+  +LVGNK DL 
Sbjct: 81  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR 140

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKA---GFNIKPLFRKIAAAL 170
              QV  +  +  +   ++   ETSAK      +++ +F  +A  L
Sbjct: 141 SAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>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 Length = 195

 Score =  207 bits (530), Expect = 8e-69
 Identities = 64/162 (39%), Positives = 101/162 (62%), Gaps = 2/162 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ +G+  VGK+S++ RF  D FD    ATIG+DF  KT+ ++    +L +WDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVE 128
           RFR+L PSY R +   ++VYDV  R +F+    W++E+ T    +D++ +LVGNK D  E
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK-E 134

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            R+V   EG   +R+ +++FIE SAK    ++  F ++   +
Sbjct: 135 NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKI 176

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  205 bits (524), Expect = 4e-68
 Identities = 40/180 (22%), Positives = 82/180 (45%), Gaps = 15/180 (8%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNT--YQATIGIDFLSKTMYLED---RTVRLQLW 63
           + KL+ +G+   GKT+++ + M  K  +     AT+GID     + + D   R + L +W
Sbjct: 2   RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVW 61

Query: 64  DTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSK-WIDEVRTERGSDVIIVLVGN 122
           D AG+E F S  P ++   ++ + VYD++  Q+ ++  K W+  ++  R S   ++LVG 
Sbjct: 62  DFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIK-ARASSSPVILVGT 120

Query: 123 KTDLVEKRQ---VSIEEGEAKSRELNVMFI-----ETSAKAGFNIKPLFRKIAAALPGME 174
             D+ +++Q      +  +    +     I       + +    +  L + I       +
Sbjct: 121 HLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFK 180

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  206 bits (526), Expect = 6e-68
 Identities = 60/172 (34%), Positives = 98/172 (56%), Gaps = 11/172 (6%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVR 59
            KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +    +           V 
Sbjct: 26  IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVH 85

Query: 60  LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRT-ERGSDVIIV 118
           LQLWDTAGQERFRSL  ++ RD+   ++++D+ S+QSFLN   W+ +++      +  IV
Sbjct: 86  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 145

Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           L+GNK DL ++R+V+  +    + +  + + ETSA  G N++     +   +
Sbjct: 146 LIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLI 197

>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* Length = 195

 Score =  204 bits (521), Expect = 2e-67
 Identities = 61/172 (35%), Positives = 95/172 (55%), Gaps = 11/172 (6%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE----------DRTVR 59
            K + LGD  VGKTS++ ++   KF++ +  T+GIDF  K +              + + 
Sbjct: 12  IKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIH 71

Query: 60  LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS-DVIIV 118
           LQLWDTAG ERFRSL  ++ RD+   ++++D+ + QSFLN   WI +++    S +  IV
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIV 131

Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           L GNK+DL ++R V  EE    + +  + + ETSA  G NI      +   +
Sbjct: 132 LCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLI 183

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  203 bits (518), Expect = 3e-67
 Identities = 48/161 (29%), Positives = 80/161 (49%), Gaps = 3/161 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
            Y++   G   VGK+S++ RF+   F  +Y  T+   +  + +  +     LQ+ DT G 
Sbjct: 3   DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGS 61

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS--DVIIVLVGNKTDL 126
            +F ++    I      ++VY + SRQS        +++   +G    + I+LVGNK D 
Sbjct: 62  HQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDE 121

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
              R+V   E EA +R     F+ETSAK   N+K LF+++ 
Sbjct: 122 SPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELL 162

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  202 bits (517), Expect = 4e-67
 Identities = 50/161 (31%), Positives = 82/161 (50%), Gaps = 3/161 (1%)

Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           + YK++ LG   VGK+++   F     D       G  +  +++ ++     L ++D   
Sbjct: 1   SVYKVLLLGAPGVGKSALARIFG-GVEDGPEAEAAGHTY-DRSIVVDGEEASLMVYDIWE 58

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDL 126
           Q+  R L    +      V+VY V  + SF   S+   ++R  R +D V I+LVGNK+DL
Sbjct: 59  QDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDL 118

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           V  R+VS++EG A +   +  FIETSA    N++ LF  + 
Sbjct: 119 VRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV 159

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  198 bits (507), Expect = 3e-65
 Identities = 53/164 (32%), Positives = 80/164 (48%), Gaps = 2/164 (1%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
             +   K+V LG + VGKTS+  +F+  +F   Y  T+   + SK + L      L L D
Sbjct: 20  PLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVD 78

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNK 123
           TAGQ+ +  L  S+I      V+VY V S  SF        ++    G   V +VLVGNK
Sbjct: 79  TAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNK 138

Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            DL  +R+V   EG+  +      F+E+SA+     + +F K+ 
Sbjct: 139 ADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVI 182

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  197 bits (504), Expect = 5e-65
 Identities = 51/160 (31%), Positives = 95/160 (59%), Gaps = 2/160 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
            +K++ +G   VGK+++  +FMYD+F   Y+ T    +  K + L+   V++ + DTAGQ
Sbjct: 18  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQ 76

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLV 127
           E + ++  +Y R     + V+ +   +SF  T+ + +++   +  + V  +LVGNK+DL 
Sbjct: 77  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 136

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           +KRQVS+EE + ++ + NV ++ETSAK   N+  +F  + 
Sbjct: 137 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLM 176

>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 Length = 211

 Score =  198 bits (506), Expect = 6e-65
 Identities = 51/173 (29%), Positives = 91/173 (52%), Gaps = 9/173 (5%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRF--MYDKFDNTYQATIGIDFLSKTMYLEDRTV 58
           ++  S    Y++V +G+Q VGK+++   F  ++D  D+  +     D   +T+ ++  + 
Sbjct: 29  ISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLG-EDTYERTLMVDGESA 87

Query: 59  R---LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD- 114
               L +W+  G+  +  L    ++     ++VY +  R SF   S+   ++R  R ++ 
Sbjct: 88  TIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTED 145

Query: 115 VIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           + I+LVGNK+DLV  R+VS+ EG A +   +  FIETSA    N+K LF  I 
Sbjct: 146 IPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIV 198

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  196 bits (502), Expect = 7e-65
 Identities = 53/163 (32%), Positives = 98/163 (60%), Gaps = 2/163 (1%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           +LA +K++ +G   VGK+++  +FMYD+F   Y+ T    +  K + L+   V++ + DT
Sbjct: 1   SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDT 59

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKT 124
           AGQE + ++  +Y R     + V+ +   +SF  T+ + +++   +  + V  +LVGNK+
Sbjct: 60  AGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKS 119

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           DL +KRQVS+EE + ++ + NV ++ETSAK   N+  +F  + 
Sbjct: 120 DLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLM 162

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  206 bits (525), Expect = 4e-64
 Identities = 36/182 (19%), Positives = 78/182 (42%), Gaps = 12/182 (6%)

Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYL--------EDRTV 58
           L + K+  +GD   GKTS++ + + + FD     T G++ ++K            E +  
Sbjct: 39  LQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKEC 98

Query: 59  RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIV 118
               WD  GQE   +    ++  SSV +++ D    ++  N   W+  +  + G    ++
Sbjct: 99  LFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDS---RTDSNKHYWLRHIE-KYGGKSPVI 154

Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSS 178
           +V NK D      +  ++   +   +   F   S K G  ++ + + + +A+   +++  
Sbjct: 155 VVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPDSIYG 214

Query: 179 TK 180
           T 
Sbjct: 215 TP 216

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  195 bits (497), Expect = 4e-64
 Identities = 56/162 (34%), Positives = 92/162 (56%), Gaps = 2/162 (1%)

Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YK+V LG   VGK+++  +F+   F   Y  TI  DF  K + ++     L++ DTA
Sbjct: 1   MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTA 59

Query: 67  GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTD 125
           G E+F S+   YI++    ++VY + ++QSF +     D++   +  + V ++LVGNK D
Sbjct: 60  GTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVD 119

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           L  +R+VS  EG A + E    F+ETSAK+   +  LF +I 
Sbjct: 120 LESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV 161

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  194 bits (496), Expect = 7e-64
 Identities = 58/183 (31%), Positives = 92/183 (50%), Gaps = 5/183 (2%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           M         K+  LG +SVGK+S+  +F+  +F ++Y  TI   F +K + +  +   L
Sbjct: 1   MPQSK---SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHL 56

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVL 119
           QL DTAGQ+ +     +Y  D +  ++VY V S +SF        ++    G   + I+L
Sbjct: 57  QLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIML 116

Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSST 179
           VGNK DL  +R +S EEG+A +   N  F+E+SAK       +FR+I      M+   S 
Sbjct: 117 VGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQ 176

Query: 180 KQE 182
            + 
Sbjct: 177 GKS 179

>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} Length = 175

 Score =  194 bits (495), Expect = 8e-64
 Identities = 56/165 (33%), Positives = 88/165 (53%), Gaps = 4/165 (2%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++A Y++V LGD  VGKTS+ + F   +  + +   +G D   +T+ ++     L + DT
Sbjct: 1   SMALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDT 59

Query: 66  AGQERFRSLIP--SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGN 122
              E+        S ++  S  V+VY +A R SF + S+   ++R    +D V I+LVGN
Sbjct: 60  WEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGN 119

Query: 123 KTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           K DL   R+VS+EEG A +   +  FIETSA    N+  LF  + 
Sbjct: 120 KADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVV 164

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  191 bits (488), Expect = 3e-62
 Identities = 53/200 (26%), Positives = 102/200 (51%), Gaps = 10/200 (5%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G   VGK+++  +FMYD+F   Y+ T    +  K + L+   V++ + DTAGQE
Sbjct: 15  HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQE 73

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLVE 128
            + ++  +Y R     + V+ +   +SF  T+ + +++   +  + V  +LVGNK+DL +
Sbjct: 74  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 133

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVN 188
           KRQVS+EE + ++ + NV ++ETSAK   N+  +F  +   +          ++      
Sbjct: 134 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI--------RARKMEDSKE 185

Query: 189 LRSTTGNASQSQSQSSGCSC 208
                   S ++     C  
Sbjct: 186 KNGKKKRKSLAKRIRERCCI 205

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  188 bits (480), Expect = 2e-61
 Identities = 54/168 (32%), Positives = 83/168 (49%), Gaps = 3/168 (1%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           M P      +KLV +G   VGK+++  +F+   F + Y  TI  D  +K   ++    RL
Sbjct: 2   MDP-PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARL 59

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVL 119
            + DTAGQE F ++   Y+R     ++V+ +  RQSF    K   ++   +  D   +VL
Sbjct: 60  DILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVL 119

Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           VGNK DL  +RQV   E  A     +V + E SAK   N+   F ++ 
Sbjct: 120 VGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLV 167

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  187 bits (477), Expect = 9e-61
 Identities = 51/200 (25%), Positives = 90/200 (45%), Gaps = 13/200 (6%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           Y++V  G   VGK+S++ RF+   F +TY  TI   +  + +  +     LQ+ DT G  
Sbjct: 9   YRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSH 67

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVR--TERGSDVIIVLVGNKTDLV 127
           +F ++    I      ++V+ V S+QS          +        D+ ++LVGNK D  
Sbjct: 68  QFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDET 127

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDV 187
           + R+V   E +A ++E    F+ETSAK  +N+K LF+++              +  M   
Sbjct: 128 Q-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLE---------TRRNMSLN 177

Query: 188 NLRSTTGNASQSQSQSSGCS 207
                +G   ++      C+
Sbjct: 178 IDGKRSGKQKRTDRVKGKCT 197

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  186 bits (474), Expect = 2e-60
 Identities = 49/168 (29%), Positives = 88/168 (52%), Gaps = 7/168 (4%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRT---VRL 60
             +  Y++V +G+Q VGK+++   F       ++    +G D   +T+ ++  +   + L
Sbjct: 2   FGMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILL 61

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVL 119
            +W+  G+  +  L    ++     ++VY +  R SF   S+   ++R  R ++ + I+L
Sbjct: 62  DMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119

Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           VGNK+DLV  R+VS+ EG A +   +  FIETSA    N+K LF  I 
Sbjct: 120 VGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIV 167

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  184 bits (470), Expect = 7e-60
 Identities = 51/168 (30%), Positives = 88/168 (52%), Gaps = 3/168 (1%)

Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
            P   L  YKLV +GD  VGK+++  +F    F + Y  TI  D   K   ++++   L 
Sbjct: 11  VPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILD 69

Query: 62  LWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLV 120
           + DTAGQE F ++   Y+R     ++VY V  + SF +  ++   +   +  +   ++LV
Sbjct: 70  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG-FNIKPLFRKIA 167
            NK DL+  R+V+ ++G+  + + N+ +IETSAK    N+   F  + 
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLV 177

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  182 bits (464), Expect = 3e-59
 Identities = 46/162 (28%), Positives = 88/162 (54%), Gaps = 3/162 (1%)

Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F +    TI   +  K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTA 59

Query: 67  GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTD 125
           GQE + ++   Y+R     + V+ + + +SF +  ++ ++++  + SD V +VLVGNK+D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSD 119

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           L   R V   + +  +R   + +IETSAK    ++  F  + 
Sbjct: 120 L-AARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  180 bits (458), Expect = 6e-58
 Identities = 47/165 (28%), Positives = 88/165 (53%), Gaps = 3/165 (1%)

Query: 4   VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 63
              + +YKLV +G   VGK+++  + + + F + Y  TI   +  K + ++  T  L + 
Sbjct: 16  FQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDIL 74

Query: 64  DTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGN 122
           DTAGQE + ++   Y+R     + V+ + + +SF + + + ++++  + SD V +VLVGN
Sbjct: 75  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGN 134

Query: 123 KTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           K DL   R V  ++    ++   + FIETSAK    ++  F  + 
Sbjct: 135 KCDL-PTRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLV 178

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  179 bits (457), Expect = 8e-58
 Identities = 47/163 (28%), Positives = 86/163 (52%), Gaps = 3/163 (1%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
              +YKLV +G   VGK+++  + + + F + Y  TI   +  K + ++  T  L + DT
Sbjct: 1   GSTEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDT 59

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKT 124
           AGQE + ++   Y+R     + V+ + + +SF +   + ++++  + S+ V +VLVGNK 
Sbjct: 60  AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKC 119

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
           DL   R V  ++ +  +R   + FIETSAK    +   F  + 
Sbjct: 120 DL-PSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLV 161

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  177 bits (452), Expect = 2e-57
 Identities = 47/161 (29%), Positives = 92/161 (57%), Gaps = 3/161 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +YKLV LG   VGK+++  +F+   F   Y  TI   +  K + ++ +   L++ DTAG 
Sbjct: 3   EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGT 61

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLV 127
           E+F ++   Y+++     +VY + ++ +F +     +++   + ++ V ++LVGNK DL 
Sbjct: 62  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE 121

Query: 128 EKRQVSIEEGEAKSRE-LNVMFIETSAKAGFNIKPLFRKIA 167
           ++R V  E+G+  +R+  N  F+E+SAK+  N+  +F  + 
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLV 162

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  177 bits (450), Expect = 1e-56
 Identities = 53/161 (32%), Positives = 80/161 (49%), Gaps = 4/161 (2%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + KL   G   VGK++++ RF+  +F   Y  T+   +      ++D  V +++ DTAGQ
Sbjct: 28  EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQ 86

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLV 127
           E        ++R     V+VYD+  R SF       + +   +    V ++LVGNK DL 
Sbjct: 87  EDTIQR-EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD 145

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGF-NIKPLFRKIA 167
             RQVS EEGE  + EL   F E SA  G  NI  +F ++ 
Sbjct: 146 HSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELC 186

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  175 bits (445), Expect = 5e-56
 Identities = 44/163 (26%), Positives = 82/163 (50%), Gaps = 6/163 (3%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +  L  LG +  GK+++  +F+  +F + Y   +   + S    ++ + V L++ DTA  
Sbjct: 21  EVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADL 79

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW---IDEVRTERGSDVIIVLVGNKTD 125
           +  R+    Y+  +   +VVY V SRQSF ++S +   +     E    +  +L+GNK D
Sbjct: 80  DTPRN-CERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLD 138

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGF-NIKPLFRKIA 167
           + + RQV+  EG A +     +F E SA   F +++ +F +  
Sbjct: 139 MAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAV 181

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  163 bits (415), Expect = 1e-51
 Identities = 31/163 (19%), Positives = 69/163 (42%), Gaps = 11/163 (6%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + K+  +G+ S GK++++ R++   +     +  G  F  K + ++ ++  L + D  G 
Sbjct: 20  ELKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRF-KKEIVVDGQSYLLLIRDEGGP 77

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLV 127
              +     +       V V+ +    SF     +   + + R +  + +VLVG +  + 
Sbjct: 78  PELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAIS 132

Query: 128 E--KRQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKIA 167
               R +        S +L    + ET A  G N++ +F+ +A
Sbjct: 133 AANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVA 175

>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 Length = 178

 Score =  158 bits (401), Expect = 1e-49
 Identities = 33/169 (19%), Positives = 70/169 (41%), Gaps = 13/169 (7%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
            ++ + +L  LGD   GK+S+I RF+   +    + T   +   K M ++ +T  + + +
Sbjct: 3   RSIPELRLGVLGDARSGKSSLIHRFLTGSYQ-VLEKTES-EQYKKEMLVDGQTHLVLIRE 60

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-----VIIVL 119
            AG    +     +   +   + V+ +    SF   S+   ++ + RG       + +V 
Sbjct: 61  EAGAPDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVG 115

Query: 120 VGNKTDLVEKRQVSIEEGEA-KSRELNVMFIETSAKAGFNIKPLFRKIA 167
             ++      R V      A  +      + ET A  G N+  +F+++A
Sbjct: 116 TQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVA 164

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  155 bits (393), Expect = 4e-48
 Identities = 54/165 (32%), Positives = 84/165 (50%), Gaps = 7/165 (4%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD +VGKT ++  F   +    Y  T+  +F S  M  ++    L LWDTAGQE 
Sbjct: 25  KIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQEE 83

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P    DS V ++ + V +R SF N ++KW  E++         VLVG K DL + 
Sbjct: 84  YDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIK-HYIDTAKTVLVGLKVDLRKD 142

Query: 130 RQ--VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
               V+ +EG+   ++L  V +IE S+ A   +  +F K +    
Sbjct: 143 GSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIF 187

>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 Length = 182

 Score =  144 bits (364), Expect = 7e-44
 Identities = 58/179 (32%), Positives = 91/179 (50%), Gaps = 15/179 (8%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
           SA    K V +GD +VGKT ++  +  + F   Y  T+  +F S  + +   TV L LWD
Sbjct: 4   SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWD 62

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P   R + V ++ + + S+ S+ N + KWI E++      V IVLVG K
Sbjct: 63  TAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELK-HYAPGVPIVLVGTK 121

Query: 124 TDLVEKRQ----------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
            DL + +Q          ++  +GE   + +    +IE S+K+  N+K +F   I   L
Sbjct: 122 LDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL 180

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score =  142 bits (359), Expect = 7e-43
 Identities = 54/175 (30%), Positives = 86/175 (49%), Gaps = 17/175 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQED 90

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVE- 128
           +  L P     + V ++ + + S  SF N  +KW  EVR     +  I+LVG K DL + 
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 149

Query: 129 -----------KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
                         ++  +G A ++E+  V ++E SA     +K +F + I A L
Sbjct: 150 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>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* ... Length = 201

 Score =  141 bits (357), Expect = 1e-42
 Identities = 54/177 (30%), Positives = 85/177 (48%), Gaps = 17/177 (9%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + KLV +GD + GKT ++  F  D+F   Y  T+  +     + ++ + V L LWDTAGQ
Sbjct: 25  RKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELALWDTAGQ 83

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLV 127
           E +  L P    D+ V ++ + + S  S  N   KW  EV+     +V I+LVGNK DL 
Sbjct: 84  EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLR 142

Query: 128 E------------KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
           +            +  V  EEG   +  ++   ++E SAK    ++ +F     A L
Sbjct: 143 QDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL 199

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  140 bits (355), Expect = 3e-42
 Identities = 53/175 (30%), Positives = 89/175 (50%), Gaps = 17/175 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +GD   GKTS++  F    F  +Y  T+   +    + ++ + V L +WDTAGQ+ 
Sbjct: 36  KVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDD 94

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           +  L P +  D+SV ++ +DV S  SF N  ++W  EV       V I++VG KTDL + 
Sbjct: 95  YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVN-HFCKKVPIIVVGCKTDLRKD 153

Query: 130 RQ------------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
           +             V+   G+  +R +  V ++E SA+   N+  +F++    AL
Sbjct: 154 KSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVAL 208

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  140 bits (354), Expect = 4e-42
 Identities = 54/172 (31%), Positives = 89/172 (51%), Gaps = 12/172 (6%)

Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           + +S     K V +GD +VGKT ++  +  +KF   Y  T+  D  S  + ++ + V L 
Sbjct: 2   SHMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVAVDGQIVNLG 60

Query: 62  LWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLV 120
           LWDTAGQE +  L P   R + + V+ + + S+ S+ N   KW+ E+R     +V IVLV
Sbjct: 61  LWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLV 119

Query: 121 GNKTDLVE--------KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLF 163
           G K DL +           ++  +GE   +++    +IE S+K   N+K +F
Sbjct: 120 GTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF 171

>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* Length = 184

 Score =  137 bits (346), Expect = 3e-41
 Identities = 42/178 (23%), Positives = 87/178 (48%), Gaps = 18/178 (10%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K K+V +GD   GKT+++  F  D F   Y  T+  ++ + +  ++ + + L LWDT+G 
Sbjct: 7   KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGS 65

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLV 127
             + ++ P    DS   ++ +D++  ++  +   KW  E++ E   +  ++LVG K+DL 
Sbjct: 66  PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSDLR 124

Query: 128 E------------KRQVSIEEGEAKSRELN-VMFIETSAKAG-FNIKPLFRK-IAAAL 170
                        +  VS ++G   ++++    +IE SA     +++ +F     A +
Sbjct: 125 TDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV 182

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  137 bits (348), Expect = 3e-41
 Identities = 56/184 (30%), Positives = 87/184 (47%), Gaps = 17/184 (9%)

Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           A  +     K V +GD +VGKTS++  +  + +   Y  T   D  S  + ++ R VRLQ
Sbjct: 13  AGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQ 71

Query: 62  LWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLV 120
           L DTAGQ+ F  L P    ++ + ++ + V S  SF N   KW+ E+R        I+LV
Sbjct: 72  LCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIR-CHCPKAPIILV 130

Query: 121 GNKTDLVEKRQ------------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-I 166
           G ++DL E  +            V  E  +  + E+    +IE SA    N+K +F   I
Sbjct: 131 GTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAI 190

Query: 167 AAAL 170
            A +
Sbjct: 191 VAGI 194

>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 Length = 207

 Score =  137 bits (347), Expect = 4e-41
 Identities = 54/181 (29%), Positives = 87/181 (48%), Gaps = 17/181 (9%)

Query: 5   SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWD 64
            ++ + KLV +GD + GKT ++  F  D+F   Y  T+  ++    + ++ + V L LWD
Sbjct: 21  QSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWD 79

Query: 65  TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNK 123
           TAGQE +  L P    D+ V ++ + V S  S  N   KW+ EV+     +V I+LV NK
Sbjct: 80  TAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVK-HFCPNVPIILVANK 138

Query: 124 TDLVEKRQ------------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAA 169
            DL                 V  ++G A +  +    ++E SAK    ++ +F     AA
Sbjct: 139 KDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAA 198

Query: 170 L 170
           L
Sbjct: 199 L 199

>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 ... Length = 186

 Score =  133 bits (336), Expect = 1e-39
 Identities = 54/175 (30%), Positives = 87/175 (49%), Gaps = 17/175 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVE- 128
           +  L P     + V+++ + + S  SF N  +KW  EVR     +  I+LVG K DL + 
Sbjct: 66  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDD 124

Query: 129 -----------KRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
                         ++  +G A ++E+  V ++E SA     +K +F + I A L
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 179

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score =  132 bits (334), Expect = 3e-39
 Identities = 49/185 (26%), Positives = 89/185 (48%), Gaps = 17/185 (9%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA        K V +GD +VGKT ++  +  D F   Y  T+  D  + ++ +  +   L
Sbjct: 10  MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLL 68

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVL 119
            L+DTAGQE +  L P     + V ++ + V +  SF N   +W+ E++ E   +V  +L
Sbjct: 69  GLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELK-EYAPNVPFLL 127

Query: 120 VGNKTDLVEKRQ------------VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK- 165
           +G + DL +  +            + +E+G+  ++E+    ++E SA     +K +F + 
Sbjct: 128 IGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEA 187

Query: 166 IAAAL 170
           I A L
Sbjct: 188 IIAIL 192

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score =  129 bits (327), Expect = 4e-38
 Identities = 44/186 (23%), Positives = 90/186 (48%), Gaps = 19/186 (10%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           M P   + K K+V +GD   GKT+++  F  D F   Y  T+  ++ + +  ++ + + L
Sbjct: 21  MDPNQNV-KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIEL 78

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVL 119
            LWDT+G   + ++ P    DS   ++ +D++  ++  +   KW  E++ E   +  ++L
Sbjct: 79  SLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLL 137

Query: 120 VGNKTDLVE------------KRQVSIEEGEAKSRELN-VMFIETSAKAG-FNIKPLFRK 165
           VG K+DL              +  VS ++G   ++++    +IE SA     +++ +F  
Sbjct: 138 VGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHV 197

Query: 166 -IAAAL 170
              A +
Sbjct: 198 ATLACV 203

>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* Length = 214

 Score =  129 bits (325), Expect = 1e-37
 Identities = 48/185 (25%), Positives = 90/185 (48%), Gaps = 18/185 (9%)

Query: 2   APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQ 61
           AP   +A+ KLV +GD   GKT+++     D +  TY  T+  ++ +  +  E++ V L 
Sbjct: 20  APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 78

Query: 62  LWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLV 120
           LWDT+G   + ++ P    DS   ++ +D++  ++  +   KW  E+  +      ++L+
Sbjct: 79  LWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEIL-DYCPSTRVLLI 137

Query: 121 GNKTDLVE------------KRQVSIEEGEAKSRELN-VMFIETSAKAG-FNIKPLFRK- 165
           G KTDL              +  +S E+G A +++L   +++E SA     +I  +FR  
Sbjct: 138 GCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTA 197

Query: 166 IAAAL 170
               L
Sbjct: 198 SMLCL 202

>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* Length = 332

 Score =  100 bits (251), Expect = 1e-25
 Identities = 54/176 (30%), Positives = 87/176 (49%), Gaps = 17/176 (9%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAG E
Sbjct: 156 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLE 214

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDL-- 126
            +  L P     + V ++ + + S  SF +  +KW  EVR     +  I+LVG K DL  
Sbjct: 215 DYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 273

Query: 127 --------VEKRQ--VSIEEGEAKSRELN-VMFIETSAKAGFNIKPLFRK-IAAAL 170
                    EK+   ++  +G A ++E+  V ++E SA     +K +F + I A L
Sbjct: 274 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 329

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 98.5 bits (245), Expect = 2e-25
 Identities = 31/217 (14%), Positives = 68/217 (31%), Gaps = 66/217 (30%)

Query: 16  GDQSVGKTSIITRFMYDKFDNTYQATI----GIDFLSKTM--------------YLEDRT 57
           G   +GK+ +  RF+    D  +          DF  + +                +   
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 58  VRLQLW-------DTAGQERFRSLIPSYIRDSSV-------------------------- 84
            ++ +        D   Q    + +  YI+ ++                           
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 85  -----------AVVVYDVAS--RQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKR 130
                       ++  DV+    ++F +  K++  +  +       IV+V  K D   +R
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214

Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            +      A S++ N+  +ETSA++  N+   F  + 
Sbjct: 215 YIRDAHTFALSKK-NLQVVETSARSNVNVDLAFSTLV 250

>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* Length = 198

 Score = 75.6 bits (186), Expect = 3e-17
 Identities = 35/178 (19%), Positives = 66/178 (37%), Gaps = 23/178 (12%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA-----------TIGIDFLSKTM-YLEDR 56
            +K+V+ G    GKT+ + +++Y K     +            T+  DFL   +  ++  
Sbjct: 14  NFKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGF 72

Query: 57  TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD------VASRQSFLNTSKWIDEVRTE 110
             R  L+   GQ  + +     +R     V V D       A+ +S  N  + + E    
Sbjct: 73  KTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLT 132

Query: 111 RGSDVIIVLVGNKTDLVEKRQVSIEE-GEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
                I++ V NK DL     + +E        E     +E  A  G  +    ++++
Sbjct: 133 LDDVPIVIQV-NKRDL--PDALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVS 187

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 69.3 bits (169), Expect = 2e-14
 Identities = 38/189 (20%), Positives = 68/189 (35%), Gaps = 22/189 (11%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDN---TYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
             KL+ +G    GK+S+ +    +          ATI ++            + L LWD 
Sbjct: 3   GSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRF---LGNMTLNLWDC 59

Query: 66  AGQERF-----RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER--GSDVIIV 118
            GQ+ F             +   V + V+DV S +   +   +   ++  R    D  I 
Sbjct: 60  GGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIF 119

Query: 119 LVGNKTDLV--EKRQVSIEEGEAKSREL-------NVMFIETSAKAGFNIKPLFRKIAAA 169
           ++ +K DLV  +KR+   +       E        N++   TS       K   + + + 
Sbjct: 120 VLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDESLYKAWSQIVCSL 179

Query: 170 LPGMETLSS 178
           +P M    S
Sbjct: 180 IPNMSNHQS 188

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 66.5 bits (162), Expect = 6e-14
 Identities = 23/145 (15%), Positives = 49/145 (33%), Gaps = 14/145 (9%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDN---TYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           K +++ +G +  GK+SI     +    N     ++T  I    K        V  Q+WD 
Sbjct: 20  KPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIY---KDDISNSSFVNFQIWDF 76

Query: 66  AGQERFRSL---IPSYIRDSSVAVVVYDVASR--QSFLNTSKWIDEVRTERGSDVIIVLV 120
            GQ  F           R +   + V D      ++       + +           V +
Sbjct: 77  PGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFI 136

Query: 121 GNKTDLV--EKRQVSIEEGEAKSRE 143
            +K D +  + +  +  +   ++ +
Sbjct: 137 -HKVDGLSDDHKIETQRDIHQRAND 160

>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* Length = 171

 Score = 61.4 bits (150), Expect = 3e-12
 Identities = 36/167 (21%), Positives = 65/167 (38%), Gaps = 31/167 (18%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ LG    GKT+I+ R    +   T   TIG  F  +T  +  + ++ Q+WD  G 
Sbjct: 7   EMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVET--VTYKNLKFQVWDLGGL 61

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLV 120
              R     Y  ++   + V D   R         I   ++E             I+V+ 
Sbjct: 62  TSIRPYWRCYYSNTDAVIYVVDSCDRD-------RIGISKSELVAMLEEEELRKAILVVF 114

Query: 121 GNKTDLVEKRQVSIEE-------GEAKSRELNVMFIETSAKAGFNIK 160
            NK D+  ++ ++  E          K R+  +   +TSA  G  + 
Sbjct: 115 ANKQDM--EQAMTSSEMANSLGLPALKDRKWQIF--KTSATKGTGLD 157

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 61.5 bits (150), Expect = 4e-12
 Identities = 35/167 (20%), Positives = 62/167 (37%), Gaps = 31/167 (18%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K +++ LG  + GKTSI+ R        T   T+G     +T  L+ + +  ++WD  GQ
Sbjct: 22  KIRVLMLGLDNAGKTSILYRLHLGDVVTT-VPTVG--VNLET--LQYKNISFEVWDLGGQ 76

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLV 120
              R     Y  D+   + V D   R         +   + E             ++++ 
Sbjct: 77  TGVRPYWRCYFSDTDAVIYVVDSTDRD-------RMGVAKHELYALLDEDELRKSLLLIF 129

Query: 121 GNKTDLVEKRQVSIEE-------GEAKSRELNVMFIETSAKAGFNIK 160
            NK DL      S  E           +R   ++  ++S+K G  + 
Sbjct: 130 ANKQDL--PDAASEAEIAEQLGVSSIMNRTWTIV--KSSSKTGDGLV 172

>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* Length = 188

 Score = 61.4 bits (150), Expect = 4e-12
 Identities = 40/165 (24%), Positives = 67/165 (40%), Gaps = 26/165 (15%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +L  +G Q  GKT+ +      +F+     T+G  F  +   +    V ++LWD  GQ
Sbjct: 22  EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRK--ITKGNVTIKLWDIGGQ 77

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLV 120
            RFRS+   Y R  S  V + D A ++        I+  + E        +   + ++++
Sbjct: 78  PRFRSMWERYCRGVSAIVYMVDAADQE-------KIEASKNELHNLLDKPQLQGIPVLVL 130

Query: 121 GNKTDLVEKRQVS-IEEG----EAKSRELNVMFIETSAKAGFNIK 160
           GNK DL        + E       + RE+       S K   NI 
Sbjct: 131 GNKRDLPGALDEKELIEKMNLSAIQDREICCY--SISCKEKDNID 173

>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* Length = 186

 Score = 61.1 bits (149), Expect = 5e-12
 Identities = 42/158 (26%), Positives = 71/158 (44%), Gaps = 13/158 (8%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +L+ LG  + GKT+I+ +F  +  D     T+G  F  KT  LE R  +L +WD  GQ
Sbjct: 18  ELRLLMLGLDNAGKTTILKKFNGEDVDTI-SPTLG--FNIKT--LEHRGFKLNIWDVGGQ 72

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLV 127
           +  RS   +Y   +   + V D A RQ   +  + +  +   ER +   +++  NK DL 
Sbjct: 73  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP 132

Query: 128 EKRQVS-IEEG----EAKSRELNVMFIETSAKAGFNIK 160
                + I+E       +S    +     SA  G ++ 
Sbjct: 133 GALSCNAIQEALELDSIRSHHWRI--QGCSAVTGEDLL 168

>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* Length = 192

 Score = 60.8 bits (148), Expect = 7e-12
 Identities = 34/160 (21%), Positives = 70/160 (43%), Gaps = 17/160 (10%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ +G  + GKT+I+ +    +   T   TIG  F  +T  +E + +   +WD  GQ
Sbjct: 29  QMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVET--VEYKNICFTVWDVGGQ 83

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLV 127
           ++ R L   Y +++   + V D   R+    ++  + ++  E    D ++++  NK D+ 
Sbjct: 84  DKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDM- 142

Query: 128 EKRQVSIEE-------GEAKSRELNVMFIETSAKAGFNIK 160
               + + E          +SR   V    T A  G  + 
Sbjct: 143 -PNAMPVSELTDKLGLQHLRSRTWYVQ--ATCATQGTGLY 179

>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* Length = 181

 Score = 59.5 bits (145), Expect = 1e-11
 Identities = 37/165 (22%), Positives = 70/165 (42%), Gaps = 27/165 (16%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ LG  + GKT+++ +   +   +    T G  F  K+  ++ +  +L +WD  GQ
Sbjct: 16  EVRILLLGLDNAGKTTLLKQLASEDISHI-TPTQG--FNIKS--VQSQGFKLNVWDIGGQ 70

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLV 120
            + R    SY  ++ + + V D A R+         +E   E        + S V +++ 
Sbjct: 71  RKIRPYWRSYFENTDILIYVIDSADRK-------RFEETGQELTELLEEEKLSCVPVLIF 123

Query: 121 GNKTDLVEKRQVS-IEEG----EAKSRELNVMFIETSAKAGFNIK 160
            NK DL+     S I EG      + R   +     SA  G  ++
Sbjct: 124 ANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQ--SCSALTGEGVQ 166

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 59.2 bits (144), Expect = 2e-11
 Identities = 37/157 (23%), Positives = 65/157 (41%), Gaps = 13/157 (8%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            +++ LG    GKT+I+ R    +   T + TIG  F  +T  L  + ++L +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTT-KPTIG--FNVET--LSYKNLKLNVWDLGGQT 73

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVE 128
             R     Y  D++  + V D   +      SK +  +  E    D  +++  NK D   
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ-- 131

Query: 129 KRQVSIEE-----GEAKSRELNVMFIETSAKAGFNIK 160
              +S  E        + ++ +   + +SA  G  I 
Sbjct: 132 PGALSASEVSKELNLVELKDRSWSIVASSAIKGEGIT 168

>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* ... Length = 164

 Score = 58.7 bits (143), Expect = 2e-11
 Identities = 35/165 (21%), Positives = 68/165 (41%), Gaps = 31/165 (18%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ +G  + GKT+I+ +    +   T   TIG  F  +T  +E + +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVET--VEYKNISFTVWDVGGQDK 56

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLVGN 122
            R L   Y +++   + V D   R+        ++E R E           D ++++  N
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRER-------VNEAREELMRMLAEDELRDAVLLVFAN 109

Query: 123 KTDLVEKRQVSIEE-------GEAKSRELNVMFIETSAKAGFNIK 160
           K DL     ++  E          + R   +    T A +G  + 
Sbjct: 110 KQDL--PNAMNAAEITDKLGLHSLRHRNWYIQ--ATCATSGDGLY 150

>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* Length = 181

 Score = 59.2 bits (144), Expect = 2e-11
 Identities = 35/170 (20%), Positives = 72/170 (42%), Gaps = 17/170 (10%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++K++ +G  + GKT+I+ +F  ++  +T   TIG     +   +     R  +WD  GQ
Sbjct: 21  EHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEE--IVINNTRFLMWDIGGQ 75

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLV 127
           E  RS   +Y  ++   +VV D   R+    T + + ++   E      +++  NK D+ 
Sbjct: 76  ESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV- 134

Query: 128 EKRQVSIEE-------GEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            K  +++ E          K  + ++      A  G  +      + + L
Sbjct: 135 -KECMTVAEISQFLKLTSIKDHQWHIQ--ACCALTGEGLCQGLEWMMSRL 181

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 58.0 bits (141), Expect = 6e-11
 Identities = 35/170 (20%), Positives = 72/170 (42%), Gaps = 17/170 (10%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++K++ +G  + GKT+I+ +F  ++  +T   TIG     +   +     R  +WD  GQ
Sbjct: 16  EHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEE--IVINNTRFLMWDIGGQ 70

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLV 127
           E  RS   +Y  ++   +VV D   R+    T + + ++   E      +++  NK D+ 
Sbjct: 71  ESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV- 129

Query: 128 EKRQVSIEE-------GEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            K  +++ E          K  + ++      A  G  +      + + L
Sbjct: 130 -KECMTVAEISQFLKLTSIKDHQWHIQ--ACCALTGEGLCQGLEWMMSRL 176

>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* Length = 198

 Score = 58.4 bits (142), Expect = 6e-11
 Identities = 29/119 (24%), Positives = 54/119 (45%), Gaps = 6/119 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
             KLVFLG  + GKT+++     D+       T+     S+   L    +    +D  G 
Sbjct: 25  TGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLH--PTSEE--LTIAGMTFTTFDLGGH 79

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDL 126
            + R +  +Y+   +  V + D A  +  L + + +D +   E  ++V I+++GNK D 
Sbjct: 80  IQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDR 138

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 58.0 bits (141), Expect = 6e-11
 Identities = 30/161 (18%), Positives = 66/161 (40%), Gaps = 15/161 (9%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA-TIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           +  ++ LG  + GKT+II +       +     TIG  F  +    +  ++   ++D +G
Sbjct: 21  EVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEK--FKSSSLSFTVFDMSG 76

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE---RGSDVIIVLVGNKT 124
           Q R+R+L   Y ++    + V D + R   +   + +D +      +   + I+   NK 
Sbjct: 77  QGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKM 136

Query: 125 DLVEKRQVS-IEEG----EAKSRELNVMFIETSAKAGFNIK 160
           DL +      + +       K +  ++    + A  G  ++
Sbjct: 137 DLRDAVTSVKVSQLLCLENIKDKPWHIC--ASDAIKGEGLQ 175

>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* Length = 190

 Score = 56.8 bits (138), Expect = 2e-10
 Identities = 32/126 (25%), Positives = 49/126 (38%), Gaps = 20/126 (15%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
             KL+FLG  + GKT+++     D+     Q T      S+   L    ++   +D  G 
Sbjct: 23  HGKLLFLGLDNAGKTTLLHMLKNDRLATL-QPTWH--PTSEE--LAIGNIKFTTFDLGGH 77

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLV 120
            + R L   Y  + +  V + D A  +         DE R E           DV  V++
Sbjct: 78  IQARRLWKDYFPEVNGIVFLVDAADPE-------RFDEARVELDALFNIAELKDVPFVIL 130

Query: 121 GNKTDL 126
           GNK D 
Sbjct: 131 GNKIDA 136

>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 Length = 214

 Score = 56.7 bits (137), Expect = 3e-10
 Identities = 27/126 (21%), Positives = 50/126 (39%), Gaps = 13/126 (10%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTM-YLEDRTVRLQLWDTAG 67
           +  ++F+G    GKT +  R +  ++ +T Q +I     S       +R   L L D  G
Sbjct: 7   QRAVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSIT--DSSAIYKVNNNRGNSLTLIDLPG 63

Query: 68  QERFR-SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE-----VRTERGSDVIIVLV- 120
            E  R  L+  +   +   V V D A+ Q  +      +      + +    +   +L+ 
Sbjct: 64  HESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVA--EFLYQVLIDSMALKNSPSLLIA 121

Query: 121 GNKTDL 126
            NK D+
Sbjct: 122 CNKQDI 127

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 55.1 bits (133), Expect = 7e-10
 Identities = 26/130 (20%), Positives = 47/130 (36%), Gaps = 23/130 (17%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
            ++  G Q+ GKTS++T    D    T   +     LS   Y       + L D  G  +
Sbjct: 50  SIIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQE--PLSAADY---DGSGVTLVDFPGHVK 103

Query: 71  FRSLIPSYIRDSSVAV--VVYDVASRQSFLNTSKWIDEVRTE----------RGSDVIIV 118
            R  +  Y++  +  V  +++ V S        K +                   + I +
Sbjct: 104 LRYKLSDYLKTRAKFVKGLIFMVDS----TVDPKKLTTTAEFLVDILSITESSCENGIDI 159

Query: 119 LV-GNKTDLV 127
           L+  NK++L 
Sbjct: 160 LIACNKSELF 169

>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 Length = 218

 Score = 55.2 bits (133), Expect = 1e-09
 Identities = 30/131 (22%), Positives = 51/131 (38%), Gaps = 19/131 (14%)

Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
            +  ++  G Q+ GKTS++T    D    T   +     LS   Y       + L D  G
Sbjct: 11  YQPSIIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQE--PLSAADY---DGSGVTLVDFPG 64

Query: 68  QERFRSLIPSYIRDSSVAV--VVY--DVASRQSFLNTSK-------WIDEVRTERGSDVI 116
             + R  +  Y++  +  V  +++  D       L T+         I E   E G D++
Sbjct: 65  HVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL 124

Query: 117 IVLVGNKTDLV 127
           I    NK++L 
Sbjct: 125 I--ACNKSELF 133

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 48.7 bits (116), Expect = 3e-07
 Identities = 39/186 (20%), Positives = 75/186 (40%), Gaps = 41/186 (22%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ +G  + GKT+I+ +    +   T   TIG  F  +T  +E + +   +WD  GQ
Sbjct: 165 EMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVET--VEYKNISFTVWDVGGQ 219

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE--------RGSDVIIVLV 120
           ++ R L   Y +++   + V D   R+        ++E R E           D ++++ 
Sbjct: 220 DKIRPLWRHYFQNTQGLIFVVDSNDRE-------RVNEAREELMRMLAEDELRDAVLLVF 272

Query: 121 GNKTDLVEKRQVSIEE-------GEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGM 173
            NK DL     ++  E          + R  N     T A +G  +            G+
Sbjct: 273 ANKQDL--PNAMNAAEITDKLGLHSLRHR--NWYIQATCATSGDGL----------YEGL 318

Query: 174 ETLSST 179
           + LS+ 
Sbjct: 319 DWLSNQ 324

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 47.7 bits (113), Expect = 7e-07
 Identities = 23/161 (14%), Positives = 50/161 (31%), Gaps = 25/161 (15%)

Query: 12  LVFLGDQSVGKTSIITRFMYDKFDNTY----QATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           ++ +G +  GK+SI  + ++           ++T        +       + L + +  G
Sbjct: 2   VLLMGVRRCGKSSIC-KVVFHNMQPLDTLYLESTSNPSLEHFSTL-----IDLAVMELPG 55

Query: 68  QERFRSL---IPSYIRDSSVAVVVYDVASR-QSFLNTSKWIDEVRTERGSDVIIVLVGNK 123
           Q  +           +     V V D      + +     I E   +    + I ++ +K
Sbjct: 56  QLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHK 115

Query: 124 TDLVE-----------KRQVSIEEGEAKSRELNVMFIETSA 153
            D +             ++   E  E     + V F  TS 
Sbjct: 116 VDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSI 156

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana} Length = 423

 Score = 46.9 bits (112), Expect = 1e-06
 Identities = 12/70 (17%), Positives = 28/70 (40%), Gaps = 5/70 (7%)

Query: 102 KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP 161
             ++  + E     ++V+  NK D++ ++   ++       E  V  +  SA        
Sbjct: 131 DVVNLFK-EMEIPFVVVV--NKIDVLGEKAEELKGLYESRYEAKV--LLVSALQKKGFDD 185

Query: 162 LFRKIAAALP 171
           + + I+  LP
Sbjct: 186 IGKTISEILP 195

>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 = 45.1 bits (108), Expect = 4e-06
 Identities = 19/90 (21%), Positives = 33/90 (36%), Gaps = 2/90 (2%)

Query: 82  SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKS 141
           + V  VV+ V  R       + +          V I+LVGNK D  +  + +++      
Sbjct: 85  ADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPEEAMKAYHELL 144

Query: 142 RELNVMFIETSAKAGFNIKPLFRKIAAALP 171
            E     +  SA     +  L   + A +P
Sbjct: 145 PEAEPRML--SALDERQVAELKADLLALMP 172

>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* Length = 476

 Score = 44.5 bits (106), Expect = 1e-05
 Identities = 23/143 (16%), Positives = 47/143 (32%), Gaps = 20/143 (13%)

Query: 58  VRLQLWDTAGQ-------ERF---RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV 107
              +L DTAG        E     RS     + ++ + + + D+ + +     ++  +  
Sbjct: 281 TMFRLTDTAGLREAGEEIEHEGIRRSR--MKMAEADLILYLLDLGTERLDDELTEIRELK 338

Query: 108 RTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
                +  + V   NK D             A +       I  SA  G  I  L + + 
Sbjct: 339 AAHPAAKFLTVA--NKLDRAANAD---ALIRAIADGTGTEVIGISALNGDGIDTLKQHMG 393

Query: 168 AALPGMETLSSTKQEEMVDVNLR 190
             +  ++ L       ++  +LR
Sbjct: 394 DLVKNLDKLHE---ASVLVTSLR 413

>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 = 43.7 bits (102), Expect = 2e-05
 Identities = 32/241 (13%), Positives = 71/241 (29%), Gaps = 63/241 (26%)

Query: 3   PVSALAK--YKL-----VFL-GDQSVGKTS----------IITRFMYDKFDNTYQATIG- 43
           P   L +   +L     V + G    GKT           +  +         +   +  
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM----DFKIFWLNLKN 191

Query: 44  -------IDFLSKTMY--------LEDRTVRLQLWDTAGQERFRSLI--PSYIRDSSVAV 86
                  ++ L K +Y          D +  ++L   + Q   R L+    Y     + V
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN--CLLV 249

Query: 87  V--VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEG--EAKSR 142
           +  V +  +  +F  + K +  + T R   V   L    T                 + +
Sbjct: 250 LLNVQNAKAWNAFNLSCKIL--LTT-RFKQVTDFLSAATT--THISLDHHSMTLTPDEVK 304

Query: 143 ELNVMFIETSAKA----GFNIKPLFRK-IAAALPGM-------ETLSSTKQEEMVDVNLR 190
            L + +++   +          P     IA ++          + ++  K   +++ +L 
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 191 S 191
            
Sbjct: 365 V 365

>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 = 41.3 bits (98), Expect = 5e-05
 Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 3/61 (4%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E G+++++ L  NK DL +   + I+  +   + L V  +  SA     I+ L + I+ A
Sbjct: 106 EMGANLLLAL--NKMDLAKSLGIEIDV-DKLEKILGVKVVPLSAAKKMGIEELKKAISIA 162

Query: 170 L 170
           +
Sbjct: 163 V 163

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A Length = 172

 Score = 41.0 bits (97), Expect = 7e-05
 Identities = 22/123 (17%), Positives = 43/123 (34%), Gaps = 20/123 (16%)

Query: 58  VRLQLWDTAGQ-------ERF---RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV 107
           + L + DTAG        ER    R+     I  +   + + D  +    ++ ++   E 
Sbjct: 52  MPLHIIDTAGLREASDEVERIGIERAW--QEIEQADRVLFMVD-GTTTDAVDPAEIWPEF 108

Query: 108 RTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
                + + I +V NK D+  +     E             I  SA+ G  +  L   + 
Sbjct: 109 IARLPAKLPITVVRNKADITGETLGMSEVNGHA-------LIRLSARTGEGVDVLRNHLK 161

Query: 168 AAL 170
            ++
Sbjct: 162 QSM 164

>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 = 41.0 bits (97), Expect = 7e-05
 Identities = 16/63 (25%), Positives = 31/63 (49%), Gaps = 3/63 (4%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E G+++++ L  NK DL +   + I+  +   + L V  +  SA     I+ L + I+ A
Sbjct: 110 EMGANLLLAL--NKMDLAKSLGIEIDV-DKLEKILGVKVVPLSAAKKMGIEELKKAISIA 166

Query: 170 LPG 172
           +  
Sbjct: 167 VKD 169

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 40.6 bits (95), Expect = 2e-04
 Identities = 43/200 (21%), Positives = 75/200 (37%), Gaps = 16/200 (8%)

Query: 3   PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQ 61
           PV  L    +V  G  +VGK++++      K +  +Y  T     +      ED   R Q
Sbjct: 161 PVVDLEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVG---QFEDGYFRYQ 217

Query: 62  LWDTAG------QERFRSLIPSYIRDSSV-AVVVYDV-ASRQSFLNTSKWIDEVRTERG- 112
           + DT G       ER      + +    +  +++Y    S        + I       G 
Sbjct: 218 IIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGE 277

Query: 113 -SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             D+  ++V NK D+ ++  +   E   K + LN + I  SA  G  I  +  +I   L 
Sbjct: 278 FKDLPFLVVINKIDVADEENIKRLEKFVKEKGLNPIKI--SALKGTGIDLVKEEIIKTLR 335

Query: 172 GMETLSSTKQEEMVDVNLRS 191
            +    + ++ E      RS
Sbjct: 336 PLAEKVAREKIERELRRYRS 355

>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 = 40.0 bits (94), Expect = 2e-04
 Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 3/63 (4%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E G  V I L  N  D+++ +   I   +  S  L V  + TSA     +  + +K A  
Sbjct: 105 ETGIPVTIAL--NMIDVLDGQGKKINV-DKLSYHLGVPVVATSALKQTGVDQVVKKAAHT 161

Query: 170 LPG 172
              
Sbjct: 162 TTS 164

>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 = 40.0 bits (94), Expect = 2e-04
 Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 3/63 (4%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E    VI+ +     D  +K  + I+      + L +  + TS+  G  ++ L  KI   
Sbjct: 108 EMEKKVILAM--TAIDEAKKTGMKIDR-YELQKHLGIPVVFTSSVTGEGLEELKEKIVEY 164

Query: 170 LPG 172
              
Sbjct: 165 AQK 167

>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 = 39.2 bits (92), Expect = 4e-04
 Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 3/63 (4%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E G   I+ L  N  D+ EK+ + IE  +A S  L    I   +  G  I+ L   I   
Sbjct: 110 ELGIPCIVAL--NMLDIAEKQNIRIEI-DALSARLGCPVIPLVSTRGRGIEALKLAIDRY 166

Query: 170 LPG 172
              
Sbjct: 167 KAN 169

>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 = 39.2 bits (92), Expect = 4e-04
 Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 3/60 (5%)

Query: 110 ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA 169
           E G  V++ L  N  D+ E R +SI+  E     L    I   A     I  L + +   
Sbjct: 108 ELGKPVVVAL--NMMDIAEHRGISIDT-EKLESLLGCSVIPIQAHKNIGIPALQQSLLHC 164

>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 = 39.4 bits (93), Expect = 4e-04
 Identities = 18/119 (15%), Positives = 47/119 (39%), Gaps = 13/119 (10%)

Query: 64  DTAG--QERFRSLIPSYIRDSS------VAVVVYDVASRQSFLNTSKWIDEVRTERGSDV 115
           DT G  + +   ++   + + +        V+++ + + + +    + I +    +  + 
Sbjct: 65  DTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQ-NFIKPLNK 123

Query: 116 IIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIE---TSAKAGFNIKPLFRKIAAALP 171
            +++V NK D +   +  +     +  + +    E    SA  G N+  L + I   LP
Sbjct: 124 PVIVVINKIDKIGPAKN-VLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYLP 181

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A* Length = 262

 Score = 38.7 bits (90), Expect = 6e-04
 Identities = 23/168 (13%), Positives = 57/168 (33%), Gaps = 19/168 (11%)

Query: 11  KLVFLGDQSVGKTSII-TRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG-- 67
            ++ LG   VGK+S + +         +     G+  +  +  +   T+ +   DT G  
Sbjct: 38  TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGGFTINI--IDTPGLV 95

Query: 68  -----QERFRSLIPSYIRDSSVAVVVY-DVASRQSF----LNTSKWIDEVRTERGSDVII 117
                  +   LI  ++ + ++ V++Y D     +           I +   +      +
Sbjct: 96  EAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTL 155

Query: 118 VLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG---FNIKPL 162
           +++          ++S E   +K  +  +  I   +K     F    +
Sbjct: 156 LVL-THAQFSPPDELSYETFSSKRSDSLLKTIRAGSKMRKQEFEDSAI 202

>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* Length = 482

 Score = 39.1 bits (92), Expect = 6e-04
 Identities = 31/144 (21%), Positives = 55/144 (38%), Gaps = 26/144 (18%)

Query: 58  VRLQLWDTAGQ--------ERF---RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE 106
           +  ++ DTAG         ER    R+L    I  + + + V D AS        K ++ 
Sbjct: 291 ILFRIVDTAGVRSETNDLVERLGIERTL--QEIEKADIVLFVLD-ASSPLDEEDRKILER 347

Query: 107 VRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           ++       ++V+  NK D+VEK     EE        +   ++ SA  G  ++ L   I
Sbjct: 348 IK---NKRYLVVI--NKVDVVEKIN---EEEIKNKLGTDRHMVKISALKGEGLEKLEESI 399

Query: 167 AAALPGMETLSSTKQEEMVDVNLR 190
                 +      +  + +  NLR
Sbjct: 400 YRETQEIF----ERGSDSLITNLR 419

>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 = 38.1 bits (89), Expect = 6e-04
 Identities = 28/119 (23%), Positives = 46/119 (38%), Gaps = 15/119 (12%)

Query: 68  QERFRSLIPSYI--RDSSVAVVVYDVASRQSFLNTSKWIDEVRTE---------RGSDVI 116
           QER +  I  +I     ++ V V  V  + +     +W                R  D+ 
Sbjct: 65  QERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP 124

Query: 117 IVLVGNKTDLVEKRQVSIEEGEAK----SRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
            ++  NK D ++  Q  I     K      E++ +FI  SAK G NI+ L  +I   + 
Sbjct: 125 TIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIR 183

>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 = 38.5 bits (90), Expect = 7e-04
 Identities = 22/58 (37%), Positives = 33/58 (56%), Gaps = 3/58 (5%)

Query: 115 VIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPG 172
           +I+VL  NK DL++K+   I+  +   +EL V  I T+AK G  ++ L R IA    G
Sbjct: 112 IILVL--NKFDLLKKKGAKIDI-KKMRKELGVPVIPTNAKKGEGVEELKRMIALMAEG 166

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	208
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.98
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.98
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.97
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.96
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.96
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.96
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.93
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.96
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.96
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.95
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.95
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.95
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.94
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.94
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.94
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.93
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.93
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.93
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.93
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.93
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.92
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.92
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.92
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.92
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.91
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.91
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.91
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.91
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.91
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.9
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.89
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.89
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.89
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.89
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.88
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.88
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.88
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.88
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.88
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.88
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.88
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.88
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.87
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.87
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.87
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.87
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.87
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.87
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.86
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.86
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.85
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.85
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.85
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.85
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.85
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.85
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.84
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.84
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.84
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.84
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.84
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.84
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.83
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.82
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.82
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.82
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.82
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.81
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.81
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.81
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.8
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.8
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.79
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.78
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.77
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.77
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.77
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.76
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.76
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.76
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.76
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.76
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.75
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.75
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.75
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.72
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.7
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.7
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.69
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.69
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.67
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.63
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.63
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.62
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.62
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.62
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.6
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.58
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.57
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.55
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.54
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.51
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.51
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.46
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.39
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.38
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.37
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.28
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.16
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.03
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.02
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.0
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.97
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.96
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.95
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.85
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.79
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.78
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.53
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.45
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.45
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.38
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.28
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.28
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.2
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.2
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.06
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.05
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.9
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.88
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.77
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.58
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.46
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.42
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.33
2xxa_A	433	Signal recognition particle protein; protein trans	97.33
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.29
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.28
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.27
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.27
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.26
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.24
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.24
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.24
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.24
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.19
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.18
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.18
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.16
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.13
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.12
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.12
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.09
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.09
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.09
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.07
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.07
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.05
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.05
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.05
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.05
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.04
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.04
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.03
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.01
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.01
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.01
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.0
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.99
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.98
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.98
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.98
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.97
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.97
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.96
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.95
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.95
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.95
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.94
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.94
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.94
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.94
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.94
1g6h_A	257	High-affinity branched-chain amino acid transport	96.94
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.93
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.93
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.93
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.92
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.92
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.91
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.91
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.9
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.89
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.89
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.88
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.88
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.88
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.88
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.87
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.86
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.86
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.86
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.85
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.85
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.85
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.84
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.84
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.84
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.83
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.83
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.83
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.83
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.82
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.82
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.81
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.8
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.79
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.79
3co5_A	143	Putative two-component system transcriptional RES	96.79
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.78
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.77
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.77
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.76
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.76
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.75
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.74
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.74
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.73
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.71
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.71
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.71
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.7
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.69
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.67
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.67
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.67
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.66
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.65
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.65
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.65
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.65
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.63
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.62
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.62
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.62
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.62
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.62
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.62
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.61
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.61
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.61
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.6
1via_A	175	Shikimate kinase; structural genomics, transferase	96.6
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.6
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.58
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.58
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.57
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.56
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.56
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.55
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.55
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.55
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.54
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.52
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.52
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.52
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.51
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.48
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.48
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.48
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.48
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.47
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.47
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.47
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	96.45
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.45
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.45
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.43
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.43
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.43
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.43
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.42
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.41
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.41
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.4
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.4
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.4
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.4
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.39
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.38
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.37
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.37
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.35
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.35
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.35
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.31
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.3
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.3
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.3
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.29
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.28
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.24
2og2_A	359	Putative signal recognition particle receptor; nuc	96.23
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.21
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.2
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.19
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.18
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.18
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.17
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.16
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.16
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.15
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.14
3bos_A	242	Putative DNA replication factor; P-loop containing	96.11
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.1
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.1
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.09
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.07
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.05
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.97
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.96
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.94
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.94
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.93
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	95.91
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.91
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.91
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.89
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.89
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.88
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.86
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.85
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.84
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.84
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.82
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.81
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.77
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.73
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.73
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.72
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.72
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.72
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.71
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.7
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.7
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.7
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.69
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.69
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.68
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.64
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.63
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.63
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.62
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.59
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.59
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.57
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.57
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.55
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	95.54
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.51
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.51
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.48
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.47
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.47
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.44
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.44
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.39
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.37
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.37
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.35
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.35
3uc9_A	233	Increased recombination centers protein 6; rossman	95.33
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.33
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.31
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.31
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.28
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.28
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.26
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.25
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.25
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.24
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.22
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.16
2qgz_A	308	Helicase loader, putative primosome component; str	95.09
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.08
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	95.07
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.05
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.05
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.04
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.04
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.03
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.01
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	94.97
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.97
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	94.97
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.92
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	94.92

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=2.8e-45  Score=270.29  Aligned_cols=199  Identities=74%  Similarity=1.168  Sum_probs=148.0

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      .++++||+|+|.+|||||||+++|..+.|...+.+|.+.++....+..++..+++.||||+|+++|..+...++++++++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~   89 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAA   89 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEE
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEE
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      ++|||++++++|+.+..|+..+.....+++|++||+||+|+.+.+.++.++++.++.++++.|+++||++|.||+++|+.
T Consensus        90 ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~  169 (216)
T 4dkx_A           90 VVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRR  169 (216)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHH
Confidence            99999999999999999999999888888999999999999998999999999999999999999999999999999999


Q ss_pred             HHHHcCCCccccccccccccccccccccCCCCCCCCCCCCCCC
Q 028507          166 IAAALPGMETLSSTKQEEMVDVNLRSTTGNASQSQSQSSGCSC  208 (208)
Q Consensus       166 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  208 (208)
                      |++.+.+........+.....+......    .++..+++|||
T Consensus       170 i~~~i~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~C~C  208 (216)
T 4dkx_A          170 VAAALPGMESTQDRSREDMIDIKLEKPQ----EQPVSEGGCSC  208 (216)
T ss_dssp             HHHHC--------------------------------------
T ss_pred             HHHHHHhhhcccccccccccccccCCCC----CCCCCCCCCce
Confidence            9999977655544444333333322221    12344577777

>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=100.00  E-value=8.7e-38  Score=229.10  Aligned_cols=173  Identities=38%  Similarity=0.625  Sum_probs=156.3

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |++ .....+||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++.
T Consensus         1 M~~-~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   79 (206)
T 2bcg_Y            1 MNS-EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYR   79 (206)
T ss_dssp             --C-CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGT
T ss_pred             CCc-ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhcc
Confidence            554 2356799999999999999999999999998888888888888888888988899999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      .+|++|+|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++
T Consensus        80 ~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  159 (206)
T 2bcg_Y           80 GSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVE  159 (206)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHH
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            99999999999999999999999999988777789999999999998877888888999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCc
Q 028507          161 PLFRKIAAALPGME  174 (208)
Q Consensus       161 ~~~~~l~~~~~~~~  174 (208)
                      ++|++|.+.+.+..
T Consensus       160 ~l~~~l~~~i~~~~  173 (206)
T 2bcg_Y          160 DAFLTMARQIKESM  173 (206)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999886543

>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=100.00  E-value=1.2e-36  Score=222.92  Aligned_cols=172  Identities=39%  Similarity=0.647  Sum_probs=148.7

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |+.. ..+.++|+|+|++|+|||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+..++..++.
T Consensus         1 M~~~-~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   79 (207)
T 1vg8_A            1 MTSR-KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYR   79 (207)
T ss_dssp             -------CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGT
T ss_pred             CCcc-cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHh
Confidence            4443 356799999999999999999999999988888888888888888888888889999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCcccCCCHHHHHHHHH-hcCCeEEEeecCC
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-ELNVMFIETSAKA  155 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~  155 (208)
                      .+|++|+|||++++.++..+..|+..+.....    .++|+++|+||+|+. .+....++...++. ..+++++++||++
T Consensus        80 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  158 (207)
T 1vg8_A           80 GADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKE  158 (207)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTT
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCC
Confidence            99999999999999999999999998877653    468999999999997 45566777888877 6678999999999


Q ss_pred             CCChHHHHHHHHHHcCCCc
Q 028507          156 GFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~~~~  174 (208)
                      |.|++++|++|.+.+.+..
T Consensus       159 g~gi~~l~~~l~~~~~~~~  177 (207)
T 1vg8_A          159 AINVEQAFQTIARNALKQE  177 (207)
T ss_dssp             TBSHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhc
Confidence            9999999999999886544

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.6e-35  Score=218.60  Aligned_cols=170  Identities=33%  Similarity=0.639  Sum_probs=146.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.|||+||++.+..++..+++.+|++|
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi   90 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGAL   90 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEE
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEE
Confidence            45699999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++|++|
T Consensus        91 lV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  170 (223)
T 3cpj_B           91 IVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEEL  170 (223)
T ss_dssp             EEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988766779999999999998877888889999999999999999999999999999999


Q ss_pred             HHHcCCCccc
Q 028507          167 AAALPGMETL  176 (208)
Q Consensus       167 ~~~~~~~~~~  176 (208)
                      .+.+.+....
T Consensus       171 ~~~i~~~~~~  180 (223)
T 3cpj_B          171 INTIYQKVSK  180 (223)
T ss_dssp             HHHHTTCC--
T ss_pred             HHHHHHHhhh
Confidence            9988755443

>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=100.00  E-value=2.5e-34  Score=206.25  Aligned_cols=170  Identities=39%  Similarity=0.739  Sum_probs=153.8

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ...+.+||+|+|++|+|||||+++|.+..+.....++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus         8 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   87 (181)
T 2efe_B            8 NKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAA   87 (181)
T ss_dssp             --CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSE
T ss_pred             CCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCE
Confidence            34678999999999999999999999999888888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|+|||++++.+++.+..|+..+.....+++|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++|+
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  167 (181)
T 2efe_B           88 AIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFY  167 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999888777899999999999988788888999999999999999999999999999999


Q ss_pred             HHHHHcCCCc
Q 028507          165 KIAAALPGME  174 (208)
Q Consensus       165 ~l~~~~~~~~  174 (208)
                      +|.+.+.+.+
T Consensus       168 ~l~~~~~~~~  177 (181)
T 2efe_B          168 EIARRLPRVQ  177 (181)
T ss_dssp             HHHHTCC---
T ss_pred             HHHHHHHhcC
Confidence            9999886543

>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=100.00  E-value=5.7e-35  Score=213.78  Aligned_cols=167  Identities=32%  Similarity=0.568  Sum_probs=149.5

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      .++.++|+|+|++|+|||||+++|.++.+...+.++.+... ...+.+++..+.+.+||+||++.+..++..++..+|++
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   89 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   89 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEE
Confidence            45789999999999999999999999988777777776444 45667788888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      ++|||+++++++..+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|+
T Consensus        90 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  169 (206)
T 2bov_A           90 LCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFF  169 (206)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999999999999887653 5799999999999988888888999999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028507          165 KIAAALPGM  173 (208)
Q Consensus       165 ~l~~~~~~~  173 (208)
                      +|.+.+.+.
T Consensus       170 ~l~~~i~~~  178 (206)
T 2bov_A          170 DLMREIRAR  178 (206)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHc
Confidence            999988654

>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=100.00  E-value=2.6e-34  Score=203.89  Aligned_cols=166  Identities=40%  Similarity=0.794  Sum_probs=153.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ++.+||+|+|++|+|||||+++|.++.+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i   83 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAI   83 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEE
Confidence            46799999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+.....+++|+++|+||+|+.+.+....++...++...+++++++||++|.|++++|++|
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i  163 (170)
T 1r2q_A           84 VVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI  163 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988777789999999999998777788888999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       164 ~~~~~~  169 (170)
T 1r2q_A          164 AKKLPK  169 (170)
T ss_dssp             HHTSCC
T ss_pred             HHHHhh
Confidence            988753

>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=100.00  E-value=3e-34  Score=203.52  Aligned_cols=166  Identities=43%  Similarity=0.784  Sum_probs=152.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ++.+||+++|++|+|||||+++|.++.+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         1 v~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i   80 (170)
T 1ek0_A            1 VTSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAAL   80 (170)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEE
Confidence            35799999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc---cCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK---RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~---~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+.+.   +.+...+...++...+++++++||+++.|++++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  160 (170)
T 1ek0_A           81 VVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF  160 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHH
T ss_pred             EEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999999999998887778999999999999765   6677888888999999999999999999999999


Q ss_pred             HHHHHHcCC
Q 028507          164 RKIAAALPG  172 (208)
Q Consensus       164 ~~l~~~~~~  172 (208)
                      ++|.+.+.+
T Consensus       161 ~~l~~~i~~  169 (170)
T 1ek0_A          161 LGIGEKIPL  169 (170)
T ss_dssp             HHHHTTSCC
T ss_pred             HHHHHHHhh
Confidence            999987753

>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=100.00  E-value=2.9e-34  Score=205.39  Aligned_cols=167  Identities=34%  Similarity=0.642  Sum_probs=153.8

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ...+.+||+|+|.+|+|||||+++|.++.+...+.++.+.+.....+..++..+.+.+||+||++.+...+..+++.+|+
T Consensus        11 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   90 (179)
T 1z0f_A           11 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   90 (179)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCE
Confidence            34567999999999999999999999999888888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++++.++..++++++++||+++.|++++|+
T Consensus        91 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  170 (179)
T 1z0f_A           91 ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFL  170 (179)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999888777899999999999988788888899999999999999999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      +|.+.+.
T Consensus       171 ~l~~~i~  177 (179)
T 1z0f_A          171 EAAKKIY  177 (179)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHh
Confidence            9998774

>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=100.00  E-value=1.4e-34  Score=209.62  Aligned_cols=168  Identities=36%  Similarity=0.695  Sum_probs=150.3

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ...+.+||+|+|++|+|||||+++|.++.+.....++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|+
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   96 (191)
T 2a5j_A           17 RGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAG   96 (191)
T ss_dssp             TTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCE
Confidence            34678999999999999999999999999888778888888888888888888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|+|||++++++++.+..|+..+......++|+++|+||+|+.+.+.+..++.+.++...+++++++||+++.|++++|+
T Consensus        97 ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (191)
T 2a5j_A           97 ALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFI  176 (191)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887777899999999999988778888899999999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028507          165 KIAAALPG  172 (208)
Q Consensus       165 ~l~~~~~~  172 (208)
                      +|.+.+.+
T Consensus       177 ~l~~~i~~  184 (191)
T 2a5j_A          177 NTAKEIYR  184 (191)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988754

>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=100.00  E-value=2.6e-34  Score=207.13  Aligned_cols=168  Identities=35%  Similarity=0.629  Sum_probs=154.7

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++.+...+..++..+|++
T Consensus         7 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   86 (186)
T 2bme_A            7 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   86 (186)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEE
Confidence            35679999999999999999999999999888888888888888888888888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |+|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+...+...++...+++++++||+++.|++++|++
T Consensus        87 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  166 (186)
T 2bme_A           87 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQ  166 (186)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            99999999999999999999998877778999999999999877788888999999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028507          166 IAAALPGM  173 (208)
Q Consensus       166 l~~~~~~~  173 (208)
                      |.+.+.+.
T Consensus       167 l~~~~~~~  174 (186)
T 2bme_A          167 CARKILNK  174 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99888643

>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=100.00  E-value=8.2e-34  Score=201.37  Aligned_cols=167  Identities=38%  Similarity=0.717  Sum_probs=154.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      .++.+||+|+|++|+|||||+++|.+..+.....++.+.+.......+.+..+.+.+||+||++.+...+..++..+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            35679999999999999999999999998888888888888888888888889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |+|||++++.++..+..|+..+.....+.+|+++|+||+|+.+.+++..++...++...+++++++||+++.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  162 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIE  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHH
Confidence            99999999999999999999998877778999999999999887888888999999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028507          166 IAAALPG  172 (208)
Q Consensus       166 l~~~~~~  172 (208)
                      |.+.+.+
T Consensus       163 i~~~i~~  169 (170)
T 1z0j_A          163 ISRRIPS  169 (170)
T ss_dssp             HHHHCCC
T ss_pred             HHHHHhc
Confidence            9988753

>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=100.00  E-value=3.7e-34  Score=209.16  Aligned_cols=166  Identities=40%  Similarity=0.672  Sum_probs=153.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++|
T Consensus        24 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  103 (201)
T 2ew1_A           24 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALI  103 (201)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEE
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            35699999999999999999999999998888889888888888889998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++++.++...+++++++||++|.|++++|++|
T Consensus       104 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l  183 (201)
T 2ew1_A          104 LTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDL  183 (201)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988777789999999999998878888889999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       184 ~~~i~~  189 (201)
T 2ew1_A          184 ACRLIS  189 (201)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988754

>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=100.00  E-value=4.1e-35  Score=210.87  Aligned_cols=167  Identities=40%  Similarity=0.701  Sum_probs=124.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   85 (183)
T 2fu5_C            6 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIM   85 (183)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEE
Confidence            45799999999999999999999998888778888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++++.++..++++++++||+++.|++++|++|
T Consensus        86 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  165 (183)
T 2fu5_C           86 LVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTL  165 (183)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988766789999999999998877888899999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028507          167 AAALPGM  173 (208)
Q Consensus       167 ~~~~~~~  173 (208)
                      .+.+.+.
T Consensus       166 ~~~i~~~  172 (183)
T 2fu5_C          166 ARDIKAK  172 (183)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988643

>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=100.00  E-value=4.6e-34  Score=206.56  Aligned_cols=166  Identities=37%  Similarity=0.694  Sum_probs=152.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|++|+|||||+++|.++.+...+.++.+.++....+...+..+.+.+||+||++.+...+..++..+|++|
T Consensus        20 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   99 (189)
T 2gf9_A           20 DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFL   99 (189)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEE
Confidence            45799999999999999999999999988887888888887788888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++++.++..++++++++||+++.|++++|++|
T Consensus       100 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  179 (189)
T 2gf9_A          100 LMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERL  179 (189)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999988766779999999999998878888888999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       180 ~~~i~~  185 (189)
T 2gf9_A          180 VDVICE  185 (189)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988753

>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=100.00  E-value=2.1e-34  Score=204.56  Aligned_cols=166  Identities=38%  Similarity=0.676  Sum_probs=146.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   83 (170)
T 1z08_A            4 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAI   83 (170)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEE
Confidence            46799999999999999999999999988888888888888788888888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+..++.+.++...+++++++||+++.|++++|++|
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  163 (170)
T 1z08_A           84 LVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL  163 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            99999999999999999999887766679999999999998888888889999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       164 ~~~~~~  169 (170)
T 1z08_A          164 CKRMIE  169 (170)
T ss_dssp             HHHHHC
T ss_pred             HHHHhh
Confidence            987753

>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=100.00  E-value=4.5e-34  Score=204.35  Aligned_cols=166  Identities=84%  Similarity=1.267  Sum_probs=153.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ++++||+|+|++|+|||||+++|+++.+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i   91 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAV   91 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            56799999999999999999999999988888888888888888889998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+...+...++...+++++++||+++.|++++|++|
T Consensus        92 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  171 (179)
T 2y8e_A           92 VVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRV  171 (179)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988776789999999999998888888889999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       172 ~~~~~~  177 (179)
T 2y8e_A          172 AAALPG  177 (179)
T ss_dssp             HHTCC-
T ss_pred             HHHHhh
Confidence            988754

>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=100.00  E-value=2e-34  Score=210.54  Aligned_cols=166  Identities=42%  Similarity=0.727  Sum_probs=145.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.|||+||++.+..++..+++.+|++|
T Consensus        27 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (201)
T 2hup_A           27 DFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAI  106 (201)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEE
T ss_pred             ccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEE
Confidence            45799999999999999999999999988778888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++++++.+..|+..+......++|+++|+||+|+.+.+.+..++++.++..+++ +++++||+++.|++++|++
T Consensus       107 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~  186 (201)
T 2hup_A          107 LAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLR  186 (201)
T ss_dssp             EEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999999999999887777899999999999988778888999999999999 9999999999999999999


Q ss_pred             HHHHcCC
Q 028507          166 IAAALPG  172 (208)
Q Consensus       166 l~~~~~~  172 (208)
                      |.+.+.+
T Consensus       187 l~~~i~~  193 (201)
T 2hup_A          187 VATELIM  193 (201)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998854

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=6.6e-34  Score=206.61  Aligned_cols=167  Identities=39%  Similarity=0.678  Sum_probs=156.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|++|+|||||+++|.++.+...+.++.+.+.....+..++..+.+.+||+||++.+..++..+++.+|++|
T Consensus        14 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   93 (196)
T 3tkl_A           14 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGII   93 (196)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEE
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEE
Confidence            34689999999999999999999999998888899998998899999998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+...+...++..++++++++||+++.|++++|++|
T Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l  173 (196)
T 3tkl_A           94 VVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTM  173 (196)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988877789999999999998888888899999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028507          167 AAALPGM  173 (208)
Q Consensus       167 ~~~~~~~  173 (208)
                      .+.+.+.
T Consensus       174 ~~~i~~~  180 (196)
T 3tkl_A          174 AAEIKKR  180 (196)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988643

>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=100.00  E-value=7.4e-34  Score=203.61  Aligned_cols=169  Identities=40%  Similarity=0.680  Sum_probs=145.0

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ..+.+||+|+|++|+|||||+++|.++.+. ..+.++.+.++....+..++..+.+.+||+||++.+...+..++..+|+
T Consensus         7 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   86 (180)
T 2g6b_A            7 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   86 (180)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCE
Confidence            356799999999999999999999998884 4667888888887777888888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++...++..++++++++||+++.|++++|+
T Consensus        87 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  166 (180)
T 2g6b_A           87 LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFT  166 (180)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887767899999999999988888888888999999999999999999999999999


Q ss_pred             HHHHHcCCCc
Q 028507          165 KIAAALPGME  174 (208)
Q Consensus       165 ~l~~~~~~~~  174 (208)
                      +|.+.+.+..
T Consensus       167 ~l~~~~~~~~  176 (180)
T 2g6b_A          167 AIAKELKRRS  176 (180)
T ss_dssp             HHHHHHHC--
T ss_pred             HHHHHHHHHh
Confidence            9999886543

>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=100.00  E-value=3.4e-34  Score=205.73  Aligned_cols=168  Identities=33%  Similarity=0.467  Sum_probs=150.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.++.+...+.++.+.++ ...+..++..+.+.+||+||++.+..++..+++.+|+++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i   82 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   82 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEE
Confidence            4679999999999999999999999888888888887666 677788888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++++++.+..|+..+..... .++|+++|+||+|+.+.+.+..++++.++..++++++++||+++.|++++|++
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~  162 (181)
T 3t5g_A           83 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRR  162 (181)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHH
Confidence            99999999999999999999876654 57999999999999888889999999999999999999999999999999999


Q ss_pred             HHHHcCCCcc
Q 028507          166 IAAALPGMET  175 (208)
Q Consensus       166 l~~~~~~~~~  175 (208)
                      |.+.+.+...
T Consensus       163 l~~~~~~~~~  172 (181)
T 3t5g_A          163 IILEAEKMDG  172 (181)
T ss_dssp             HHHHHHTC--
T ss_pred             HHHHHHHhcC
Confidence            9999876543

>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=100.00  E-value=4.7e-34  Score=204.61  Aligned_cols=169  Identities=31%  Similarity=0.472  Sum_probs=150.2

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      +.++.++|+|+|.+|+|||||+++|.++.+...+.++.+..+. ..+.+++..+.+.+||+||++.+..++..++..+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   83 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   83 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCE
Confidence            3467899999999999999999999999888877787776654 667788888899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      +++|||+++++++..+..|+..+... ...++|+++|+||+|+.+.+.+...+...++...+++++++||++|.|++++|
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  163 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Confidence            99999999999999999999988544 34679999999999998888888889999999999999999999999999999


Q ss_pred             HHHHHHcCCCc
Q 028507          164 RKIAAALPGME  174 (208)
Q Consensus       164 ~~l~~~~~~~~  174 (208)
                      ++|.+.+.+..
T Consensus       164 ~~l~~~~~~~~  174 (181)
T 2fn4_A          164 EQLVRAVRKYQ  174 (181)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhh
Confidence            99999886443

>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=100.00  E-value=7.5e-34  Score=206.02  Aligned_cols=167  Identities=38%  Similarity=0.732  Sum_probs=152.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.++.+.....++.+.++....+..++..+.+.+||+||++.+...+..++..+|++|
T Consensus        21 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii  100 (192)
T 2fg5_A           21 IRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAV  100 (192)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEE
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEE
Confidence            56899999999999999999999999988778888888888888888888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+..++++.++...+++++++||+++.|++++|++|
T Consensus       101 lV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  180 (192)
T 2fg5_A          101 IVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGI  180 (192)
T ss_dssp             EEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHH
Confidence            99999999999999999999988776779999999999998777888899999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028507          167 AAALPGM  173 (208)
Q Consensus       167 ~~~~~~~  173 (208)
                      .+.+.+.
T Consensus       181 ~~~i~~~  187 (192)
T 2fg5_A          181 SRQIPPL  187 (192)
T ss_dssp             HHTCC--
T ss_pred             HHHHHhh
Confidence            9988543

>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=100.00  E-value=5.3e-34  Score=206.54  Aligned_cols=172  Identities=35%  Similarity=0.588  Sum_probs=151.7

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeE-EEEEEECCE---------EEEEEEEEcCCchh
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFL-SKTMYLEDR---------TVRLQLWDTAGQER   70 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~---------~~~~~i~D~~G~~~   70 (208)
                      |++....+.+||+|+|++|+|||||+++|.++.+...+.++.+.++. ...+..++.         .+.+.+||+||++.
T Consensus         3 m~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   82 (195)
T 3bc1_A            3 MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLER   82 (195)
T ss_dssp             ---CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGG
T ss_pred             CcccccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHH
Confidence            55555667899999999999999999999999988888888887776 556666654         68999999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEE
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFI  149 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  149 (208)
                      +...+..+++.+|++|+|||++++.++..+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++..++++++
T Consensus        83 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  162 (195)
T 3bc1_A           83 FRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYF  162 (195)
T ss_dssp             GHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEE
Confidence            999999999999999999999999999999999999987765 6799999999999988778888899999999999999


Q ss_pred             EeecCCCCChHHHHHHHHHHcCC
Q 028507          150 ETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ++||+++.|++++|++|.+.+.+
T Consensus       163 ~~Sa~~~~~v~~l~~~l~~~~~~  185 (195)
T 3bc1_A          163 ETSAANGTNISHAIEMLLDLIMK  185 (195)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999998854

>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=100.00  E-value=1.1e-33  Score=203.40  Aligned_cols=167  Identities=29%  Similarity=0.517  Sum_probs=151.0

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCc
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      ....+.+||+|+|++|+|||||+++|.++.+...+.++.+..+ ......++..+.+.+||+||++.+..++..+++.+|
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d   91 (183)
T 3kkq_A           13 SENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGD   91 (183)
T ss_dssp             -CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCS
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCC
Confidence            3456789999999999999999999999988888888877666 677788888889999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecC-CCCChHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK-AGFNIKP  161 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~-~~~~i~~  161 (208)
                      ++|+|||++++.+++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++++.++..++++++++||+ ++.|+++
T Consensus        92 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~  171 (183)
T 3kkq_A           92 GFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDK  171 (183)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHH
Confidence            9999999999999999999999987644 4679999999999998888899999999999999999999999 9999999


Q ss_pred             HHHHHHHHcC
Q 028507          162 LFRKIAAALP  171 (208)
Q Consensus       162 ~~~~l~~~~~  171 (208)
                      +|++|.+.+.
T Consensus       172 l~~~l~~~i~  181 (183)
T 3kkq_A          172 TFHDLVRVIR  181 (183)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=6.3e-34  Score=203.95  Aligned_cols=168  Identities=38%  Similarity=0.673  Sum_probs=152.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.++.+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   86 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVI   86 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEE
Confidence            46799999999999999999999999988888888888888888999998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+.... +++|+++|+||+|+.+.+.+...+...++...+++++++||++|.|++++|++|
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  165 (181)
T 3tw8_B           87 VVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCI  165 (181)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            9999999999999999999997765 479999999999998888888899999999999999999999999999999999


Q ss_pred             HHHcCCCcc
Q 028507          167 AAALPGMET  175 (208)
Q Consensus       167 ~~~~~~~~~  175 (208)
                      .+.+.+...
T Consensus       166 ~~~~~~~~~  174 (181)
T 3tw8_B          166 TELVLRAKK  174 (181)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            998865443

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=5e-34  Score=207.00  Aligned_cols=167  Identities=35%  Similarity=0.662  Sum_probs=145.6

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      .....+||+|+|.+|+|||||+++|.++.+.....++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|+
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~  101 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKG  101 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSE
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCE
Confidence            34568999999999999999999999999887888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-CCeEEEeecCCCCChHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~  163 (208)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++++.++... +++++++||++|.|++++|
T Consensus       102 iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~  181 (192)
T 2il1_A          102 IILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIF  181 (192)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHH
Confidence            999999999999999999999998877778999999999999887888888888888875 7899999999999999999


Q ss_pred             HHHHHHcC
Q 028507          164 RKIAAALP  171 (208)
Q Consensus       164 ~~l~~~~~  171 (208)
                      ++|.+.+.
T Consensus       182 ~~l~~~i~  189 (192)
T 2il1_A          182 LKLVDDIL  189 (192)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998764

>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=100.00  E-value=1.3e-33  Score=206.41  Aligned_cols=166  Identities=35%  Similarity=0.656  Sum_probs=152.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   85 (203)
T 1zbd_A            6 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFI   85 (203)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEE
T ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEE
Confidence            45699999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|
T Consensus        86 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  165 (203)
T 1zbd_A           86 LMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL  165 (203)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999988776779999999999998878888889999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       166 ~~~i~~  171 (203)
T 1zbd_A          166 VDVICE  171 (203)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987754

>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=100.00  E-value=1.1e-33  Score=204.49  Aligned_cols=166  Identities=35%  Similarity=0.613  Sum_probs=148.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh-hchhhhccCCcE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR-SLIPSYIRDSSV   84 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~   84 (208)
                      .++.+||+|+|.+|+|||||+++|.++.+.....++.+.++....+.+++..+.+.+||+||++.+. .++..+++.+|+
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~   96 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHA   96 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCE
Confidence            4567999999999999999999999999988888888888888888888888999999999999988 788889999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC---CChH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG---FNIK  160 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~---~~i~  160 (208)
                      +|+|||++++.++..+..|+..+.... ..++|+++|+||+|+.+.+++..++.+.++..++++++++||+++   .++.
T Consensus        97 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~  176 (189)
T 1z06_A           97 VVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVE  176 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHH
Confidence            999999999999999999999998775 467999999999999888888889999999999999999999999   9999


Q ss_pred             HHHHHHHHHcC
Q 028507          161 PLFRKIAAALP  171 (208)
Q Consensus       161 ~~~~~l~~~~~  171 (208)
                      ++|++|.+.+.
T Consensus       177 ~l~~~l~~~i~  187 (189)
T 1z06_A          177 AIFMTLAHKLK  187 (189)
T ss_dssp             HHHHHHC----
T ss_pred             HHHHHHHHHHh
Confidence            99999988764

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=5.6e-34  Score=203.86  Aligned_cols=169  Identities=33%  Similarity=0.500  Sum_probs=149.8

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC-EEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ..+.+||+|+|++|+|||||+++|.++.+...+.++.+.+.....+.+++ ..+.+.+||+||++.+...+..+++++|+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   82 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQG   82 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCE
Confidence            46789999999999999999999999988777777887778778888876 57899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCc-EEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERG--SDVI-IVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p-iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      +|+|||++++++++.+..|+..+.....  ...| +++|+||+|+.+.+.+..+++..++..++++++++||++|.|+++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  162 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFL  162 (178)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHH
Confidence            9999999999999999999998876532  2355 899999999988778888899999999999999999999999999


Q ss_pred             HHHHHHHHcCCCc
Q 028507          162 LFRKIAAALPGME  174 (208)
Q Consensus       162 ~~~~l~~~~~~~~  174 (208)
                      +|++|.+.+.+..
T Consensus       163 l~~~l~~~~~~~~  175 (178)
T 2hxs_A          163 CFQKVAAEILGIK  175 (178)
T ss_dssp             HHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999887654

>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=100.00  E-value=5.7e-34  Score=208.01  Aligned_cols=167  Identities=36%  Similarity=0.651  Sum_probs=143.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|+++.+...+.++.+.++....+.+++..+.+.|||+||++.+...+..+++.+|++|
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  102 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGAL  102 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEE
Confidence            45799999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+...++..++...+++++++||++|.|++++|++|
T Consensus       103 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l  182 (200)
T 2o52_A          103 LVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKC  182 (200)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988777789999999999998777888889999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028507          167 AAALPGM  173 (208)
Q Consensus       167 ~~~~~~~  173 (208)
                      .+.+.+.
T Consensus       183 ~~~i~~~  189 (200)
T 2o52_A          183 ARTILNK  189 (200)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988643

>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=100.00  E-value=1.2e-33  Score=205.00  Aligned_cols=166  Identities=31%  Similarity=0.632  Sum_probs=152.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.+..+...+.++.+.++....+.+.+..+.+.|||+||++.+...+..++..+|++|
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi  102 (193)
T 2oil_A           23 NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGAL  102 (193)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEE
Confidence            45799999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+...++..++...+++++++||+++.|++++|++|
T Consensus       103 ~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  182 (193)
T 2oil_A          103 LVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETV  182 (193)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999987766789999999999998877788889999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       183 ~~~i~~  188 (193)
T 2oil_A          183 LKEIFA  188 (193)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987753

>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=100.00  E-value=7.5e-34  Score=206.61  Aligned_cols=168  Identities=26%  Similarity=0.372  Sum_probs=144.6

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-chhhhccCCc
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-LIPSYIRDSS   83 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d   83 (208)
                      .....+||+|+|.+|||||||+++|.+........++++.+.....+.+++..+.+.+||++|++.+.. +...+++.+|
T Consensus        19 ~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d   98 (195)
T 3cbq_A           19 QKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGD   98 (195)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCS
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCC
Confidence            345679999999999999999999986655444455666666677778889889999999999987765 6777889999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      ++|+|||++++.++..+..|+..+..... .++|+++|+||+|+.+.+.+..++++.++..++++++++||+++.|++++
T Consensus        99 ~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~l  178 (195)
T 3cbq_A           99 AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTREL  178 (195)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHH
Confidence            99999999999999999999999877654 57999999999999887888888999999999999999999999999999


Q ss_pred             HHHHHHHcCC
Q 028507          163 FRKIAAALPG  172 (208)
Q Consensus       163 ~~~l~~~~~~  172 (208)
                      |++|++.+.+
T Consensus       179 f~~l~~~i~~  188 (195)
T 3cbq_A          179 FEGAVRQIRL  188 (195)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            9999998754

>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=100.00  E-value=1.7e-33  Score=199.41  Aligned_cols=164  Identities=36%  Similarity=0.633  Sum_probs=150.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.++.+...+.++.+.+.....+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            45799999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+.... .+.|+++|+||+|+.+.+.+..++++.++...+++++++||+++.|++++|++|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  161 (168)
T 1z2a_A           83 LVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL  161 (168)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Confidence            9999999999999999999987766 569999999999998877888889999999999999999999999999999999


Q ss_pred             HHHcC
Q 028507          167 AAALP  171 (208)
Q Consensus       167 ~~~~~  171 (208)
                      .+.+.
T Consensus       162 ~~~~~  166 (168)
T 1z2a_A          162 AEKHL  166 (168)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98764

>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=100.00  E-value=1.2e-33  Score=200.50  Aligned_cols=164  Identities=39%  Similarity=0.740  Sum_probs=143.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            46899999999999999999999999888888888888888888888888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++.++..+..|+..+......++|+++|+||+|+ ..+....++...++..++++++++||+++.|++++|++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  160 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  160 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999999998887778999999999999 4556678888889999999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       161 ~~~~~  165 (170)
T 1g16_A          161 KLIQE  165 (170)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88754

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=4.5e-34  Score=210.17  Aligned_cols=172  Identities=31%  Similarity=0.504  Sum_probs=145.0

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCC
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDS   82 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   82 (208)
                      +++..+.+||+|+|++|+|||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++.+..++..++.++
T Consensus         3 ~m~~~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   81 (212)
T 2j0v_A            3 HMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGA   81 (212)
T ss_dssp             CCSCCCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTC
T ss_pred             CCCcCceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCC
Confidence            34556789999999999999999999999988777777776444 45566777788999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccC--------CCHHHHHHHHHhcCC-eEEEee
Q 028507           83 SVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--------VSIEEGEAKSRELNV-MFIETS  152 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~--------~~~~~~~~~~~~~~~-~~~~~s  152 (208)
                      |++|+|||++++++++.+. .|+..+.... +++|+++|+||+|+.+.+.        +...++..++..+++ +++++|
T Consensus        82 d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  160 (212)
T 2j0v_A           82 DIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECS  160 (212)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECC
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEcc
Confidence            9999999999999999986 7988887765 4799999999999876543        367888889998896 999999


Q ss_pred             cCCCCChHHHHHHHHHHcCCCccc
Q 028507          153 AKAGFNIKPLFRKIAAALPGMETL  176 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~~~~~~  176 (208)
                      |++|.|++++|++|.+.+.+....
T Consensus       161 a~~g~gi~~l~~~l~~~~~~~~~~  184 (212)
T 2j0v_A          161 SKTQQNVKAVFDTAIKVVLQPPRR  184 (212)
T ss_dssp             TTTCTTHHHHHHHHHHHHHCC---
T ss_pred             CCCCCCHHHHHHHHHHHHhhhhhh
Confidence            999999999999999988765443

>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=100.00  E-value=2.8e-33  Score=198.08  Aligned_cols=164  Identities=29%  Similarity=0.543  Sum_probs=145.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |+.+||+++|++|+|||||+++|.++.+...+.++.+... ...+.+++..+.+.+||+||++.+..++..++..+|+++
T Consensus         1 m~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i   79 (167)
T 1c1y_A            1 MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFA   79 (167)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEE
Confidence            4679999999999999999999999988777777776544 455667777889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-CCeEEEeecCCCCChHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|||++++.+++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++..+ +++++++||++|.|++++|+
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  159 (167)
T 1c1y_A           80 LVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFY  159 (167)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHH
Confidence            9999999999999999999887754 357999999999999888888888889998887 78999999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      +|.+.+.
T Consensus       160 ~l~~~i~  166 (167)
T 1c1y_A          160 DLVRQIN  166 (167)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9998764

>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=100.00  E-value=1.6e-33  Score=203.60  Aligned_cols=164  Identities=26%  Similarity=0.414  Sum_probs=142.2

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|.+|+|||||+++|.++.+...+.++.+..+ .....+++..+.+.|||++|++.+..+ ..++..+|++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~   95 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAF   95 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEE
Confidence            46789999999999999999999999998887788877555 455677888899999999999988775 5688999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeec-CCCCChHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERG---SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSA-KAGFNIKP  161 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa-~~~~~i~~  161 (208)
                      |+|||++++++++.+..|+..+.....   .++|+++|+||+|+.+.+.+..+++..++..++++++++|| +++.|+++
T Consensus        96 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~  175 (187)
T 3c5c_A           96 LVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQH  175 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHH
Confidence            999999999999999999999877642   57999999999999887888899999999999999999999 89999999


Q ss_pred             HHHHHHHHcC
Q 028507          162 LFRKIAAALP  171 (208)
Q Consensus       162 ~~~~l~~~~~  171 (208)
                      +|++|.+.+.
T Consensus       176 lf~~l~~~i~  185 (187)
T 3c5c_A          176 VFHEAVREAR  185 (187)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>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=100.00  E-value=4.2e-33  Score=197.12  Aligned_cols=165  Identities=32%  Similarity=0.576  Sum_probs=144.6

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +++.+||+++|++|+|||||+++|.++.+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++
T Consensus         1 S~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~   79 (168)
T 1u8z_A            1 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   79 (168)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEE
Confidence            36789999999999999999999999988777777666444 45567788888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      ++|||+++++++..+..|+..+..... .++|+++|+||+|+.+.+++..+++..++..++++++++||+++.|++++|+
T Consensus        80 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  159 (168)
T 1u8z_A           80 LCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFF  159 (168)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHH
Confidence            999999999999999999999887664 5799999999999988778888999999999999999999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      +|.+.+.
T Consensus       160 ~l~~~i~  166 (168)
T 1u8z_A          160 DLMREIR  166 (168)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998764

>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=100.00  E-value=2.5e-34  Score=208.34  Aligned_cols=166  Identities=36%  Similarity=0.671  Sum_probs=153.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.++.+.....++.+.+.....+..++..+.+.|||+||++.+..++..+++.+|++|
T Consensus        21 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  100 (191)
T 3dz8_A           21 DYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFI  100 (191)
T ss_dssp             EECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEE
T ss_pred             CeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEE
Confidence            35799999999999999999999999988888888888888888888877789999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++++++.+..|+..+......++|+++|+||+|+.+.+....++.+.++..++++++++||++|.|++++|++|
T Consensus       101 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  180 (191)
T 3dz8_A          101 LMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERL  180 (191)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999988777789999999999998888888999999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       181 ~~~i~~  186 (191)
T 3dz8_A          181 VDAICD  186 (191)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988753

>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=100.00  E-value=8e-33  Score=197.69  Aligned_cols=165  Identities=38%  Similarity=0.622  Sum_probs=145.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+|+|++|+|||||+++|.++.+.....++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+++
T Consensus         5 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   84 (177)
T 1wms_A            5 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCL   84 (177)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEE
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEE
Confidence            45799999999999999999999999988888888888888888888998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCcccCCCHHHHHHHHH-hcCCeEEEeecCCCCChHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-ELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~  161 (208)
                      +|||++++.++..+..|+..+.....    .++|+++|+||+|+. .+....+++..++. ..+++++++||++|.|+++
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  163 (177)
T 1wms_A           85 LTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAA  163 (177)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHH
Confidence            99999999999999999999877654    678999999999997 55667888888888 5678999999999999999


Q ss_pred             HHHHHHHHcCC
Q 028507          162 LFRKIAAALPG  172 (208)
Q Consensus       162 ~~~~l~~~~~~  172 (208)
                      +|++|.+.+.+
T Consensus       164 l~~~l~~~~~~  174 (177)
T 1wms_A          164 AFEEAVRRVLA  174 (177)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

>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=100.00  E-value=1.8e-33  Score=205.10  Aligned_cols=166  Identities=39%  Similarity=0.635  Sum_probs=139.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|+++.+...+.++.+.++....+.+++..+.+.|||+||++.+...+..+++.+|++|
T Consensus        26 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  105 (199)
T 2p5s_A           26 QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVL  105 (199)
T ss_dssp             --CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEE
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEE
Confidence            45799999999999999999999999987777888888888888888998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC------cccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV------EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~------~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+.      ..+.+..++++.++...+++++++||++|.|++
T Consensus       106 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv~  185 (199)
T 2p5s_A          106 LLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIV  185 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTHH
T ss_pred             EEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHH
Confidence            99999999999999999999988776779999999999996      346677888889999999999999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|++|.+.+.+
T Consensus       186 el~~~l~~~i~~  197 (199)
T 2p5s_A          186 EAVLHLAREVKK  197 (199)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHh
Confidence            999999988753

>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=100.00  E-value=4.7e-33  Score=202.53  Aligned_cols=166  Identities=30%  Similarity=0.491  Sum_probs=144.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...++|+|+|.+|+|||||+++|.++.+...+.++.+..+ ......++..+.+.+||+||++.+..++..++..+|++|
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            4569999999999999999999999988777777766443 345567788889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|||++++.+++.+..|+..+.....  .++|+++|+||+|+.+ +.....+...++..++++++++||++|.|++++|+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (199)
T 2gf0_A           85 LVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQ  163 (199)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Confidence            99999999999999988888876543  4689999999999865 55677888888889999999999999999999999


Q ss_pred             HHHHHcCCCc
Q 028507          165 KIAAALPGME  174 (208)
Q Consensus       165 ~l~~~~~~~~  174 (208)
                      +|.+.+.+..
T Consensus       164 ~l~~~~~~~~  173 (199)
T 2gf0_A          164 ELLTLETRRN  173 (199)
T ss_dssp             HHHHHCSSSC
T ss_pred             HHHHHHhhhh
Confidence            9999886543

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=8.6e-34  Score=207.14  Aligned_cols=169  Identities=32%  Similarity=0.471  Sum_probs=144.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|.+|+|||||+++|.++.+...+.++.+..+ ......++..+.+.+||+||++.+..++..+++.+|++
T Consensus        21 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   99 (201)
T 3oes_A           21 LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGY   99 (201)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEE
T ss_pred             CCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEE
Confidence            35689999999999999999999999998877777777555 55556666678899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      |+|||++++++++.+..|+..+..... .++|+++|+||+|+.+.+.+...+...++..++++++++||++|.|++++|+
T Consensus       100 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  179 (201)
T 3oes_A          100 VLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFT  179 (201)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999999999999877643 5689999999999988888999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcc
Q 028507          165 KIAAALPGMET  175 (208)
Q Consensus       165 ~l~~~~~~~~~  175 (208)
                      +|.+.+.+...
T Consensus       180 ~l~~~i~~~~~  190 (201)
T 3oes_A          180 KVIQEIARVEN  190 (201)
T ss_dssp             HHHHHHHHC--
T ss_pred             HHHHHHHhhhh
Confidence            99998865543

>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=100.00  E-value=4.3e-33  Score=201.00  Aligned_cols=166  Identities=29%  Similarity=0.514  Sum_probs=143.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+++||+|+|++|+|||||+++|.++.+...+.++.. +.....+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   80 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   80 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            3579999999999999999999999888777666664 455566778888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++.++..+..|+..+..... .++|+++|+||+|+. .+....++...++..++++++++||++|.|++++|++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  159 (189)
T 4dsu_A           81 CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYT  159 (189)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSS-SCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCc-ccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999887543 679999999999986 4556778889999999999999999999999999999


Q ss_pred             HHHHcCCCc
Q 028507          166 IAAALPGME  174 (208)
Q Consensus       166 l~~~~~~~~  174 (208)
                      |.+.+.+..
T Consensus       160 l~~~~~~~~  168 (189)
T 4dsu_A          160 LVREIRKHK  168 (189)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999886544

>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=100.00  E-value=5.5e-33  Score=200.28  Aligned_cols=163  Identities=19%  Similarity=0.340  Sum_probs=141.8

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCc
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      ...++++||+|+|++|+|||||+++|+++.+...+.++.  ......+.+++..+.+.||||+|++.+.     +++.+|
T Consensus        15 ~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~--~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~   87 (184)
T 3ihw_A           15 YFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG--GRFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVD   87 (184)
T ss_dssp             -CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC--EEEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCS
T ss_pred             CCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc--ceEEEEEEECCEEEEEEEEECCCChhhh-----eecCCC
Confidence            345789999999999999999999999999887776663  3344778888988999999999998776     678899


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCC--cccCCCHHHHHHHHHhcC-CeEEEeecCCCCCh
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLV--EKRQVSIEEGEAKSRELN-VMFIETSAKAGFNI  159 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~--~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i  159 (208)
                      ++++|||++++.+++.+..|+..+..... .++|+++|+||+|+.  ..+.+..+++..++..++ +.++++||++|.|+
T Consensus        88 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv  167 (184)
T 3ihw_A           88 AVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNV  167 (184)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCH
Confidence            99999999999999999999999987654 579999999999994  456788899999999987 89999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028507          160 KPLFRKIAAALPGM  173 (208)
Q Consensus       160 ~~~~~~l~~~~~~~  173 (208)
                      +++|++|.+.+.+.
T Consensus       168 ~~lf~~l~~~i~~~  181 (184)
T 3ihw_A          168 ERVFQDVAQKVVAL  181 (184)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999887543

>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=100.00  E-value=2.6e-33  Score=206.64  Aligned_cols=169  Identities=27%  Similarity=0.472  Sum_probs=145.4

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ..++.+||+|+|.+|+|||||+++|.++.+...+.++.+.++ ...+.+++..+.+.|||++|++.+..++..+++++|+
T Consensus        23 ~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~  101 (214)
T 3q3j_B           23 PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA  101 (214)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             CccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeE
Confidence            346789999999999999999999999999888888887665 4556677778899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEE
Q 028507           85 AVVVYDVASRQSFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIE  150 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~  150 (208)
                      +|+|||++++++++. +..|+..+.... +++|+++|+||+|+.++            +.+..+++..++..+++ ++++
T Consensus       102 ~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  180 (214)
T 3q3j_B          102 VLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLE  180 (214)
T ss_dssp             EEEEEETTCTHHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEE
Confidence            999999999999999 799999988765 57999999999999763            67889999999999999 9999


Q ss_pred             eecCCCCC-hHHHHHHHHHHcCCCcc
Q 028507          151 TSAKAGFN-IKPLFRKIAAALPGMET  175 (208)
Q Consensus       151 ~sa~~~~~-i~~~~~~l~~~~~~~~~  175 (208)
                      +||++|.| ++++|++|.+.+.+...
T Consensus       181 ~SA~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          181 GSAFTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             CCTTTCHHHHHHHHHHHHHHHHC---
T ss_pred             eccCCCcccHHHHHHHHHHHHhccCc
Confidence            99999998 99999999998865443

>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=100.00  E-value=2.9e-33  Score=206.69  Aligned_cols=186  Identities=27%  Similarity=0.441  Sum_probs=156.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC-EEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ...+||+|+|.+|+|||||+++|+++.+...+.++.+.+.........+ ..+.+.+||+||++.+..++..++..+|++
T Consensus         9 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (218)
T 4djt_A            9 ELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGA   88 (218)
T ss_dssp             -CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEE
T ss_pred             cCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEE
Confidence            4679999999999999999999999888777777777766666655544 347899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |+|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+...+...++...+++++++||++|.|++++|++
T Consensus        89 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~  168 (218)
T 4djt_A           89 ILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLH  168 (218)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHH
Confidence            99999999999999999999998887777999999999999887788888889999999999999999999999999999


Q ss_pred             HHHHcCCCccccccccccccccccccc
Q 028507          166 IAAALPGMETLSSTKQEEMVDVNLRST  192 (208)
Q Consensus       166 l~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (208)
                      |.+.+.+....................
T Consensus       169 l~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (218)
T 4djt_A          169 LARIFTGRPDLIFVSNVNLEPTEVNYD  195 (218)
T ss_dssp             HHHHHHCCTTCCBCSCCCCCBCCCCCC
T ss_pred             HHHHHhcccccccccccCcCCCccccC
Confidence            999998877766655554444444333

>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=100.00  E-value=1.1e-32  Score=199.95  Aligned_cols=168  Identities=38%  Similarity=0.676  Sum_probs=151.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ++.+||+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.|||+||++.+..++..+++.+|++|
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   92 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVI   92 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEE
Confidence            45799999999999999999999999988888888888888888888988899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++.++..+..|+..+..... .++|+++|+||+|+. .+.+..+++..++...+++++++||+++.|++++|++
T Consensus        93 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  171 (195)
T 1x3s_A           93 LVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEE  171 (195)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            99999999999999999998876543 579999999999994 4556778888999999999999999999999999999


Q ss_pred             HHHHcCCCcc
Q 028507          166 IAAALPGMET  175 (208)
Q Consensus       166 l~~~~~~~~~  175 (208)
                      |.+.+.+...
T Consensus       172 l~~~~~~~~~  181 (195)
T 1x3s_A          172 LVEKIIQTPG  181 (195)
T ss_dssp             HHHHHHTSGG
T ss_pred             HHHHHHhhhh
Confidence            9998875443

>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=100.00  E-value=7.7e-34  Score=209.64  Aligned_cols=167  Identities=36%  Similarity=0.614  Sum_probs=148.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCE----------EEEEEEEEcCCchhhhhchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVRLQLWDTAGQERFRSLIP   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~i~D~~G~~~~~~~~~   76 (208)
                      .+.+||+|+|++|+|||||+++|++..+...+.++.+.++....+.+++.          .+.+.|||+||++.+...+.
T Consensus        23 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~  102 (217)
T 2f7s_A           23 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTT  102 (217)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHH
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHH
Confidence            45799999999999999999999999887777778777777766766655          68899999999999999999


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCC
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKA  155 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  155 (208)
                      .++..+|++|+|||++++.++..+..|+..+..... .++|+++|+||+|+.+.+.+...+++.++..++++++++||++
T Consensus       103 ~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~  182 (217)
T 2f7s_A          103 AFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAAT  182 (217)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTT
T ss_pred             HHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCC
Confidence            999999999999999999999999999888765543 6799999999999988778888999999999999999999999


Q ss_pred             CCChHHHHHHHHHHcCCC
Q 028507          156 GFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~~~  173 (208)
                      +.|++++|++|.+.+.+.
T Consensus       183 g~gi~~l~~~l~~~i~~~  200 (217)
T 2f7s_A          183 GQNVEKAVETLLDLIMKR  200 (217)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            999999999999988643

>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=100.00  E-value=5.4e-33  Score=198.13  Aligned_cols=165  Identities=34%  Similarity=0.459  Sum_probs=134.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh--hhhchhhhccCCcE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER--FRSLIPSYIRDSSV   84 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~d~   84 (208)
                      ++.+||+|+|++|+|||||+++|.+..+.... ++.+.+.....+.+++..+.+.+||+||++.  +..+...++..+|+
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~   80 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSA   80 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSE
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCE
Confidence            46799999999999999999999988775443 3455566677778888888999999999887  56667778899999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      +++|||++++.+++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++.+.++..++++++++||++|.|++++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           81 YVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHH
Confidence            999999999999999999998887653 3569999999999998878888888888999999999999999999999999


Q ss_pred             HHHHHHcCC
Q 028507          164 RKIAAALPG  172 (208)
Q Consensus       164 ~~l~~~~~~  172 (208)
                      ++|.+.+.+
T Consensus       161 ~~l~~~~~~  169 (175)
T 2nzj_A          161 EGVVRQLRL  169 (175)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988753

>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=100.00  E-value=7.2e-33  Score=199.41  Aligned_cols=167  Identities=32%  Similarity=0.573  Sum_probs=147.3

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ..++.+||+|+|++|+|||||+++|.+..+...+.++.+... ...+..++..+.+.+||+||++.+..++..++..+|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   92 (187)
T 2a9k_A           14 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEG   92 (187)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCE
Confidence            356789999999999999999999999988777777766444 4556778888899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      +|+|||+++++++..+..|+..+..... .++|+++|+||+|+.+.+.+...++..++..++++++++||+++.|++++|
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  172 (187)
T 2a9k_A           93 FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF  172 (187)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHH
Confidence            9999999999999999999999887664 479999999999998877888899999999999999999999999999999


Q ss_pred             HHHHHHcCC
Q 028507          164 RKIAAALPG  172 (208)
Q Consensus       164 ~~l~~~~~~  172 (208)
                      ++|.+.+.+
T Consensus       173 ~~l~~~i~~  181 (187)
T 2a9k_A          173 FDLMREIRA  181 (187)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998754

>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=100.00  E-value=6e-33  Score=196.15  Aligned_cols=164  Identities=34%  Similarity=0.540  Sum_probs=146.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |+++||+++|++|+|||||+++|.++.+...+.++.+. .....+.+++..+.+.+||+||++.+..++..++..+|+++
T Consensus         1 m~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i   79 (167)
T 1kao_A            1 MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFI   79 (167)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcce-eEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            46799999999999999999999999887777676653 34666778888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++.+++.+..|+..+..... .+.|+++|+||+|+.+.+++...+...++..++++++++||++|.|++++|++
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  159 (167)
T 1kao_A           80 LVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHH
Confidence            99999999999999999998877653 57999999999999887888888889999999999999999999999999999


Q ss_pred             HHHHcC
Q 028507          166 IAAALP  171 (208)
Q Consensus       166 l~~~~~  171 (208)
                      |.+.+.
T Consensus       160 l~~~~~  165 (167)
T 1kao_A          160 IVRQMN  165 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            988763

>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=100.00  E-value=5.9e-33  Score=196.95  Aligned_cols=163  Identities=26%  Similarity=0.403  Sum_probs=133.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-chhhhccCCcEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-LIPSYIRDSSVAVV   87 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~   87 (208)
                      .+||+++|++|+|||||+++|.+..+.....++.+.+.....+.+++..+.+.+||++|++.+.. +...+++.+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            48999999999999999999998777666666666777788888899899999999999998876 67777889999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      |||++++++++.+..|+..+..... .++|+++|+||+|+.+.+.+..++...++..++++++++||+++.|++++|++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  161 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGA  161 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHH
Confidence            9999999999999999999987664 479999999999998888899999999999999999999999999999999999


Q ss_pred             HHHcC
Q 028507          167 AAALP  171 (208)
Q Consensus       167 ~~~~~  171 (208)
                      .+.+.
T Consensus       162 ~~~i~  166 (169)
T 3q85_A          162 VRQIR  166 (169)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98764

>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=100.00  E-value=1.3e-32  Score=202.39  Aligned_cols=166  Identities=40%  Similarity=0.723  Sum_probs=150.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   97 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGII   97 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEE
Confidence            45799999999999999999999999988888888888888888888888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.++..+..|+..+......++|+++|+||+|+ ..+.....+...++..++++++++||+++.|++++|++|
T Consensus        98 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  176 (213)
T 3cph_A           98 LVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL  176 (213)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999999999998877677999999999999 556667788888899899999999999999999999999


Q ss_pred             HHHcCCC
Q 028507          167 AAALPGM  173 (208)
Q Consensus       167 ~~~~~~~  173 (208)
                      .+.+.+.
T Consensus       177 ~~~~~~~  183 (213)
T 3cph_A          177 AKLIQEK  183 (213)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887543

>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=100.00  E-value=1.3e-32  Score=199.69  Aligned_cols=169  Identities=27%  Similarity=0.474  Sum_probs=145.5

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |++....+.+||+|+|++|+|||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++++..++..+++
T Consensus        10 m~~~~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   88 (194)
T 2atx_A           10 MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYP   88 (194)
T ss_dssp             CSSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCT
T ss_pred             cCCCCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcC
Confidence            3334444679999999999999999999999988777777776544 455667777789999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-
Q 028507           81 DSSVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-  146 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-  146 (208)
                      ++|++|+|||+++++++..+. .|+..+.... +++|+++|+||+|+.+.            +.+..+++..++..+++ 
T Consensus        89 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  167 (194)
T 2atx_A           89 MTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGAC  167 (194)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCS
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCc
Confidence            999999999999999999987 7888887764 46999999999999764            46778889999999998 


Q ss_pred             eEEEeecCCCCChHHHHHHHHHHcC
Q 028507          147 MFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       147 ~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      +++++||++|.|++++|++|.+.+.
T Consensus       168 ~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          168 CYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999988763

>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=100.00  E-value=1.7e-32  Score=199.44  Aligned_cols=167  Identities=32%  Similarity=0.481  Sum_probs=145.4

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCc
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      +...+.+||+|+|.+|+|||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++. ...+..++..+|
T Consensus        23 ~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d  100 (196)
T 2atv_A           23 MAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGE  100 (196)
T ss_dssp             ----CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCS
T ss_pred             cCCCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCC
Confidence            3446789999999999999999999999998777777776544 45567788889999999999887 677788899999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC-ChHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF-NIKP  161 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~  161 (208)
                      ++|+|||++++++++.+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++..++++++++||+++. |+++
T Consensus       101 ~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~  180 (196)
T 2atv_A          101 GFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITE  180 (196)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHH
Confidence            99999999999999999999998877653 679999999999998878888899999999999999999999999 9999


Q ss_pred             HHHHHHHHcCC
Q 028507          162 LFRKIAAALPG  172 (208)
Q Consensus       162 ~~~~l~~~~~~  172 (208)
                      +|++|.+.+.+
T Consensus       181 l~~~l~~~i~~  191 (196)
T 2atv_A          181 IFYELCREVRR  191 (196)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999988753

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=4.5e-32  Score=197.90  Aligned_cols=163  Identities=38%  Similarity=0.675  Sum_probs=145.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEE----------------------------
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT----------------------------   57 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------   57 (208)
                      ..+.+||+|+|++|+|||||+++|++..+...+.++.+.++....+.+++..                            
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC------------------------------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccc
Confidence            3567999999999999999999999999888888888888877777776654                            


Q ss_pred             ---------EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           58 ---------VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        58 ---------~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                               +.+.|||+||++.+...+..+++.+|++|+|||++++.++..+..|+..+.....  .|+++|+||+| ..
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~NK~D-~~  160 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVANKID-KN  160 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEECTT-CC
T ss_pred             ccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEECCC-cc
Confidence                     7899999999999999999999999999999999999999999999999987654  99999999999 55


Q ss_pred             ccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      .+....+++..++...+++++++||+++.|++++|++|.+.+.
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  203 (208)
T 3clv_A          161 KFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIY  203 (208)
T ss_dssp             -CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHH
Confidence            6677889999999999999999999999999999999988764

>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=100.00  E-value=3.1e-32  Score=197.74  Aligned_cols=166  Identities=31%  Similarity=0.503  Sum_probs=146.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.++.+...+.++.+..+. ..+.+++..+.+.+||+||++.+..++..+++++|++|
T Consensus        21 ~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   99 (194)
T 3reg_A           21 KKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVL   99 (194)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEE
Confidence            46799999999999999999999999988787888776554 46678888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc--cCCCHHHHHHHHHhcCCe-EEEeecCCCCChHHH
Q 028507           87 VVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK--RQVSIEEGEAKSRELNVM-FIETSAKAGFNIKPL  162 (208)
Q Consensus        87 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~--~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~  162 (208)
                      +|||++++.+++.+ ..|+..+.... .++|+++|+||+|+.+.  +.+..+++..++..+++. ++++||++|.|++++
T Consensus       100 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  178 (194)
T 3reg_A          100 LCFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEV  178 (194)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHH
Confidence            99999999999997 77888777554 57999999999999754  667889999999999997 999999999999999


Q ss_pred             HHHHHHHcCCCc
Q 028507          163 FRKIAAALPGME  174 (208)
Q Consensus       163 ~~~l~~~~~~~~  174 (208)
                      |++|.+.+.+..
T Consensus       179 ~~~l~~~i~~~~  190 (194)
T 3reg_A          179 FEKSVDCIFSNK  190 (194)
T ss_dssp             HHHHHHHHHCSC
T ss_pred             HHHHHHHHHhcC
Confidence            999999886543

>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=100.00  E-value=2.7e-32  Score=195.26  Aligned_cols=162  Identities=21%  Similarity=0.381  Sum_probs=137.0

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ..++.+||+|+|++|+|||||+++|.++.+.. +.++.+. .....+.+++..+.+.+||++|++.     ..+++++|+
T Consensus         3 ~~~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~   75 (178)
T 2iwr_A            3 RSIPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESE-QYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADA   75 (178)
T ss_dssp             CCCCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSS-EEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcce-eEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCE
Confidence            45678999999999999999999999998876 5666653 3456677888889999999999876     356788999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCC--cccCCCHHHHHHHHHhc-CCeEEEeecCCCCC
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTER---GSDVIIVLVGNKTDLV--EKRQVSIEEGEAKSREL-NVMFIETSAKAGFN  158 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~piivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~  158 (208)
                      +|+|||++++++++.+..|+..+....   .+++|+++|+||+|+.  ..+.+..+++..++... +++++++||++|.|
T Consensus        76 ~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~  155 (178)
T 2iwr_A           76 VIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLN  155 (178)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBT
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCC
Confidence            999999999999999999877665543   3679999999999994  45677888888888876 68999999999999


Q ss_pred             hHHHHHHHHHHcCCC
Q 028507          159 IKPLFRKIAAALPGM  173 (208)
Q Consensus       159 i~~~~~~l~~~~~~~  173 (208)
                      ++++|++|.+.+.+.
T Consensus       156 i~~lf~~l~~~~~~~  170 (178)
T 2iwr_A          156 VDRVFQEVAQKVVTL  170 (178)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999887543

>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=100.00  E-value=3.3e-32  Score=195.88  Aligned_cols=167  Identities=30%  Similarity=0.503  Sum_probs=145.5

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      .++.+||+++|++|+|||||+++|.++.+...+.++.+... ...+.+++..+.+.+||+||++.+..++..++..+|++
T Consensus         2 ~~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   80 (186)
T 1mh1_A            2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVS   80 (186)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEE
Confidence            46789999999999999999999999988777777765443 45667788889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEe
Q 028507           86 VVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIET  151 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  151 (208)
                      |+|||++++.++..+. .|+..+..... ++|+++|+||+|+.+.            +.+..++...++..+++ +++++
T Consensus        81 i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  159 (186)
T 1mh1_A           81 LICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  159 (186)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHST-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCChhhHHHHHHHHHHHHHHhCC-CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEe
Confidence            9999999999999987 78888877653 7999999999998653            46778888889999997 99999


Q ss_pred             ecCCCCChHHHHHHHHHHcCCCc
Q 028507          152 SAKAGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~~~~~  174 (208)
                      ||++|.|++++|++|.+.+.+..
T Consensus       160 Sa~~g~gi~~l~~~l~~~~~~~~  182 (186)
T 1mh1_A          160 SALTQRGLKTVFDEAIRAVLCPP  182 (186)
T ss_dssp             CTTTCTTHHHHHHHHHHHHSCCC
T ss_pred             cCCCccCHHHHHHHHHHHHhccc
Confidence            99999999999999999886543

>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=100.00  E-value=7.6e-33  Score=198.46  Aligned_cols=171  Identities=37%  Similarity=0.608  Sum_probs=133.4

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhchhhhc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYI   79 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~   79 (208)
                      |+.. ..+.++|+|+|++|+|||||+++|.+..+...+.++.+.+.....+.++ +..+.+.+||+||++.+...+..++
T Consensus         1 Ms~~-~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   79 (182)
T 1ky3_A            1 MSSR-KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFY   79 (182)
T ss_dssp             -------CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCS
T ss_pred             CCcc-cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHh
Confidence            5442 3567999999999999999999999999888888888877777777776 5567899999999999999999999


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCc-ccCCCHHHHHHHHH-hcCCeEEEeec
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVE-KRQVSIEEGEAKSR-ELNVMFIETSA  153 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~sa  153 (208)
                      +.+|++|+|||++++.+++.+..|+..+.....    .++|+++|+||+|+.+ .+.+...++..++. ..+++++++||
T Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  159 (182)
T 1ky3_A           80 RGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSA  159 (182)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBT
T ss_pred             hcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEec
Confidence            999999999999999999999999999877654    6799999999999954 34567788888887 55679999999


Q ss_pred             CCCCChHHHHHHHHHHcCC
Q 028507          154 KAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~~~~  172 (208)
                      ++|.|++++|++|.+.+.+
T Consensus       160 ~~~~gi~~l~~~l~~~~~~  178 (182)
T 1ky3_A          160 KNAINVDTAFEEIARSALQ  178 (182)
T ss_dssp             TTTBSHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHH
Confidence            9999999999999987753

>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=100.00  E-value=2e-32  Score=193.71  Aligned_cols=161  Identities=30%  Similarity=0.453  Sum_probs=122.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|++|+|||||+++|.+...... .++.+.+. .....+++..+.+.+||++|++.+..++..++..+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCC-CCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            58999999999999999999987665322 23333333 45667888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      ||++++++++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  159 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  159 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHH
Confidence            99999999999999999987654 36799999999999988888999999999999999999999999999999999999


Q ss_pred             HHcC
Q 028507          168 AALP  171 (208)
Q Consensus       168 ~~~~  171 (208)
                      +.+.
T Consensus       160 ~~~~  163 (166)
T 3q72_A          160 RQIR  163 (166)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8774

>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=100.00  E-value=2.4e-32  Score=200.61  Aligned_cols=164  Identities=30%  Similarity=0.452  Sum_probs=138.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC--CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-hhhchhhhccCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF--DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-FRSLIPSYIRDSS   83 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d   83 (208)
                      .+.+||+|+|.+|||||||+++|.+...  ... .++++.+.....+.+++..+.+.+|||+|.+. +..+...+++.++
T Consensus        35 ~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~-~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~  113 (211)
T 2g3y_A           35 NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-CEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD  113 (211)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCc-CCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCC
Confidence            4679999999999999999999996443  333 34456666677778889888999999999876 4556677788999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      ++|+|||++++++|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++.+.++..++++++++||++|.|++++
T Consensus       114 ~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~el  193 (211)
T 2g3y_A          114 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKEL  193 (211)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            9999999999999999999998887543 357999999999999877788888888888889999999999999999999


Q ss_pred             HHHHHHHcC
Q 028507          163 FRKIAAALP  171 (208)
Q Consensus       163 ~~~l~~~~~  171 (208)
                      |++|.+.+.
T Consensus       194 f~~l~~~i~  202 (211)
T 2g3y_A          194 FEGIVRQVR  202 (211)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998874

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=4.5e-32  Score=192.64  Aligned_cols=165  Identities=29%  Similarity=0.474  Sum_probs=144.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.+||+++|++|+|||||+++|.++.+...+.++.+.++ ......++..+.+.+||+||++.+..++..++..+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            468999999999999999999999888777677766444 3455677778899999999999999989999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |||++++.+++.+..|+..+.....  +++|+++|+||+|+.+.+.+...+...++..++++++++||+++.|++++|++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  160 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHH
Confidence            9999999999999999988876543  46999999999999887888888888899999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028507          166 IAAALPGM  173 (208)
Q Consensus       166 l~~~~~~~  173 (208)
                      |.+.+.+.
T Consensus       161 l~~~~~~~  168 (172)
T 2erx_A          161 LLNLEKRR  168 (172)
T ss_dssp             HHHTCCSS
T ss_pred             HHHHHhhh
Confidence            99987543

>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=100.00  E-value=7.1e-32  Score=195.09  Aligned_cols=167  Identities=28%  Similarity=0.497  Sum_probs=134.9

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      +.++.++|+++|.+|+|||||+++|.++.+...+.++.+. .....+..++..+.+.+||+||++.+...+..++..+|+
T Consensus        17 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   95 (190)
T 3con_A           17 QGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIED-SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEG   95 (190)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCC-----------CTTCSE
T ss_pred             cccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccce-EEEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCE
Confidence            3577899999999999999999999998887666666553 334567778888899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      +++|||++++.++..+..|+..+..... .++|+++|+||+|+.+ +....++++.++..++++++++||+++.|++++|
T Consensus        96 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  174 (190)
T 3con_A           96 FLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAF  174 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999999999998877654 5699999999999876 5567888899999999999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028507          164 RKIAAALPGM  173 (208)
Q Consensus       164 ~~l~~~~~~~  173 (208)
                      ++|.+.+.+.
T Consensus       175 ~~l~~~~~~~  184 (190)
T 3con_A          175 YTLVREIRQY  184 (190)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988543

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=5.5e-33  Score=203.42  Aligned_cols=167  Identities=29%  Similarity=0.476  Sum_probs=111.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cCCCCCCCccceeeEEEEEEECCE--EEEEEEEEcCCchhhhhchhhhccCC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KFDNTYQATIGIDFLSKTMYLEDR--TVRLQLWDTAGQERFRSLIPSYIRDS   82 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~   82 (208)
                      .+.++|+|+|++|+|||||+++|.+.  .+...+.++.+.+.....+.+++.  .+.+.+||+||++.+...+..+++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            35689999999999999999999988  777777788777777777888776  78999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCc-ccCCCHHHHHHHHHhcCCeEEEeecCC-CC
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERG---SDVIIVLVGNKTDLVE-KRQVSIEEGEAKSRELNVMFIETSAKA-GF  157 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~piivv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~sa~~-~~  157 (208)
                      |++|+|||++++.+++.+..|+..+.....   .++|+++|+||+|+.+ .+.+..+++..++..++++++++||++ +.
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~  177 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGK  177 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-----
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCc
Confidence            999999999999999999999999988765   6799999999999987 778888999999999999999999999 99


Q ss_pred             ChHHHHHHHHHHcCCC
Q 028507          158 NIKPLFRKIAAALPGM  173 (208)
Q Consensus       158 ~i~~~~~~l~~~~~~~  173 (208)
                      |++++|++|.+.+.+.
T Consensus       178 gi~~l~~~i~~~~~~~  193 (208)
T 2yc2_C          178 DADAPFLSIATTFYRN  193 (208)
T ss_dssp             --CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9999999999987543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=5.4e-32  Score=197.43  Aligned_cols=166  Identities=33%  Similarity=0.495  Sum_probs=136.9

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|++|+|||||+++|.++.+...+.++++..+ ...+..++..+.+.+||+||++.+..++..++.++|++
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   95 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIF   95 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEE
Confidence            45689999999999999999999999888777777776443 55677788888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEe
Q 028507           86 VVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIET  151 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  151 (208)
                      |+|||+++++++..+. .|+..+.... +++|+++|+||+|+.+.            +.+..++...++..+++ +++++
T Consensus        96 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  174 (201)
T 2q3h_A           96 LLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIEC  174 (201)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEE
Confidence            9999999999999986 7888887765 47999999999999752            56778888999998887 99999


Q ss_pred             ecCCCCChHHHHHHHHHHcCCC
Q 028507          152 SAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ||+++.|++++|++|.+.+.+.
T Consensus       175 Sa~~g~gi~~l~~~l~~~~~~~  196 (201)
T 2q3h_A          175 SALTQKNLKEVFDAAIVAGIQY  196 (201)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHHH
T ss_pred             ecCCCCCHHHHHHHHHHHHhcc
Confidence            9999999999999999887543

>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=100.00  E-value=1.7e-31  Score=194.96  Aligned_cols=163  Identities=33%  Similarity=0.532  Sum_probs=142.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|.+|+|||||+++|.++.+...+.++.+.++. ..+.+++..+.+.+||+||++.+..++..++..+|++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEE
Confidence            45799999999999999999999999988777777776554 34677888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEee
Q 028507           87 VVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIETS  152 (208)
Q Consensus        87 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~s  152 (208)
                      +|||+++++++..+ ..|+..+.... +++|+++|+||+|+.+.            +.+..++...++...++ +++++|
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (201)
T 2gco_A          102 MCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECS  180 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEee
Confidence            99999999999998 67888777654 47999999999999765            45777888899999898 999999


Q ss_pred             cCCCCChHHHHHHHHHHcC
Q 028507          153 AKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~  171 (208)
                      |++|.|++++|++|.+.+.
T Consensus       181 A~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          181 AKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             TTTCTTHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHh
Confidence            9999999999999988764

>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=100.00  E-value=8e-32  Score=194.01  Aligned_cols=164  Identities=25%  Similarity=0.486  Sum_probs=141.6

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|++|+|||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++.+..++..++..+|++
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            35679999999999999999999999988777777776554 34566777788999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcC-CeEEEe
Q 028507           86 VVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELN-VMFIET  151 (208)
Q Consensus        86 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~  151 (208)
                      |+|||++++++++.+ ..|+..+.... +++|+++|+||+|+.+.            +.+..+++..++..++ ++++++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  161 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  161 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEe
Confidence            999999999999998 78888887654 57999999999999752            5677888999999888 699999


Q ss_pred             ecC-CCCChHHHHHHHHHHcC
Q 028507          152 SAK-AGFNIKPLFRKIAAALP  171 (208)
Q Consensus       152 sa~-~~~~i~~~~~~l~~~~~  171 (208)
                      ||+ ++.|++++|+++.+.+.
T Consensus       162 Sa~~~~~gi~~l~~~i~~~~l  182 (184)
T 1m7b_A          162 SALQSENSVRDIFHVATLACV  182 (184)
T ss_dssp             BTTTBHHHHHHHHHHHHHHHH
T ss_pred             eecCCCcCHHHHHHHHHHHHh
Confidence            999 68999999999988764

>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=100.00  E-value=3.2e-31  Score=186.96  Aligned_cols=163  Identities=28%  Similarity=0.501  Sum_probs=142.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |+.+||+++|++|+|||||+++|.++.+.....++.+. .....+..++..+.+.+||+||++.+...+..++..+|+++
T Consensus         1 m~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i   79 (166)
T 2ce2_X            1 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIED-SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   79 (166)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCcCccccCCccce-EEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEE
Confidence            45789999999999999999999998887666666653 33556677888889999999999999988999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++.++..+..|+..+..... .++|+++|+||+|+.+ +.....+...++..++++++++|++++.|++++|++
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  158 (166)
T 2ce2_X           80 CVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYT  158 (166)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Confidence            99999999999999999998877654 4799999999999876 456678888899999999999999999999999999


Q ss_pred             HHHHcC
Q 028507          166 IAAALP  171 (208)
Q Consensus       166 l~~~~~  171 (208)
                      |.+.+.
T Consensus       159 l~~~~~  164 (166)
T 2ce2_X          159 LVREIR  164 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998764

>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=100.00  E-value=8.8e-32  Score=197.15  Aligned_cols=163  Identities=25%  Similarity=0.490  Sum_probs=141.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...+||+|+|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.|||++|++.+..++..++..+|++|
T Consensus        26 ~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  104 (205)
T 1gwn_A           26 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL  104 (205)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEE
Confidence            4579999999999999999999999998877777776555 445667777889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcC-CeEEEee
Q 028507           87 VVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELN-VMFIETS  152 (208)
Q Consensus        87 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~s  152 (208)
                      +|||++++.+++.+ ..|+..+.... +++|+++|+||+|+.+.            +.+..++++.++..++ +.++++|
T Consensus       105 lv~D~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  183 (205)
T 1gwn_A          105 ICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  183 (205)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEee
Confidence            99999999999998 78888887664 57999999999999742            5577888899998888 6999999


Q ss_pred             cC-CCCChHHHHHHHHHHcC
Q 028507          153 AK-AGFNIKPLFRKIAAALP  171 (208)
Q Consensus       153 a~-~~~~i~~~~~~l~~~~~  171 (208)
                      |+ ++.|++++|+.|.+.+.
T Consensus       184 Ak~~~~gv~~lf~~l~~~~l  203 (205)
T 1gwn_A          184 ALQSENSVRDIFHVATLACV  203 (205)
T ss_dssp             TTTCHHHHHHHHHHHHHHHH
T ss_pred             eccCCcCHHHHHHHHHHHHh
Confidence            99 68999999999988764

>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=100.00  E-value=4.8e-32  Score=200.65  Aligned_cols=171  Identities=29%  Similarity=0.541  Sum_probs=150.1

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCC
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDS   82 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   82 (208)
                      .....+.+||+|+|.+|+|||||+++|+.+.+...+.++.+.+........++..+.+.+|||||++.+..++..+++++
T Consensus         9 ~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   88 (221)
T 3gj0_A            9 QGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQA   88 (221)
T ss_dssp             TTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTC
T ss_pred             CCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcC
Confidence            34456789999999999999999999988888777788888888888888899999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      |++|+|||++++.++..+..|+..+.... .++|+++|+||+|+.+....  .+...++...++.++++||+++.|++++
T Consensus        89 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  165 (221)
T 3gj0_A           89 QCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKP  165 (221)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCSSC--GGGCCHHHHHTCEEEECBGGGTBTTTHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCcccccccc--HHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999998765 46999999999999765432  2556677788999999999999999999


Q ss_pred             HHHHHHHcCCCccc
Q 028507          163 FRKIAAALPGMETL  176 (208)
Q Consensus       163 ~~~l~~~~~~~~~~  176 (208)
                      |++|.+.+.+.+..
T Consensus       166 ~~~l~~~l~~~~~~  179 (221)
T 3gj0_A          166 FLWLARKLIGDPNL  179 (221)
T ss_dssp             HHHHHHHHHTCTTC
T ss_pred             HHHHHHHHHhCccc
Confidence            99999988665443

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=100.00  E-value=4e-34  Score=208.60  Aligned_cols=166  Identities=39%  Similarity=0.686  Sum_probs=142.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.+..+...+.++.+.+.....+.+++..+.+.|||+||++.+...+..+++.+|++|
T Consensus        31 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  110 (199)
T 3l0i_B           31 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGII  110 (199)
T ss_dssp             SEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEE
Confidence            45699999999999999999999999988888888888888888889998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+...+...++..++++++++||+++.|++++|++|
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l  190 (199)
T 3l0i_B          111 VVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTM  190 (199)
T ss_dssp             ECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999987776789999999999998877777777788899999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      .+.+.+
T Consensus       191 ~~~l~~  196 (199)
T 3l0i_B          191 AAEIKK  196 (199)
T ss_dssp             TTTTTT
T ss_pred             HHHHHH
Confidence            988754

>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=100.00  E-value=1.2e-31  Score=197.71  Aligned_cols=165  Identities=31%  Similarity=0.518  Sum_probs=124.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.++.+...+.++... .....+.+++..+.+.+||+||++.+..++..++.++|++|
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  110 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFE-RYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLL  110 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCE-EEEEEEEETTEEEEEEEEEC---------------CEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccce-eEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEE
Confidence            46799999999999999999999998887776776653 33556677888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc------------CCCHHHHHHHHHhcCC-eEEEee
Q 028507           87 VVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR------------QVSIEEGEAKSRELNV-MFIETS  152 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~s  152 (208)
                      +|||++++.+++.+. .|+..+.... +++|+++|+||+|+.+..            .+...++..++..+++ +++++|
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  189 (214)
T 2j1l_A          111 LCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECS  189 (214)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECB
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEec
Confidence            999999999999986 7888887654 569999999999997653            5777888999999998 999999


Q ss_pred             cCCCCChHHHHHHHHHHcCCC
Q 028507          153 AKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~~~  173 (208)
                      |++|.|++++|++|.+.+.+.
T Consensus       190 A~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          190 ARLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999987543

>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=100.00  E-value=3.9e-31  Score=193.92  Aligned_cols=165  Identities=32%  Similarity=0.532  Sum_probs=138.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      .+..+||+|+|.+|+|||||+++|.++.+...+.++.+.... ..+..++..+.+.+||+||++.+...+..++..+|++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  100 (207)
T 2fv8_A           22 SMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVI  100 (207)
T ss_dssp             GSEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEE
T ss_pred             cccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEE
Confidence            356799999999999999999999999887777777765554 3467788888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEe
Q 028507           86 VVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIET  151 (208)
Q Consensus        86 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  151 (208)
                      |+|||+++++++..+ ..|+..+.... +++|+++|+||+|+.+.            +.+...+...++...++ .++++
T Consensus       101 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  179 (207)
T 2fv8_A          101 LMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLEC  179 (207)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEe
Confidence            999999999999998 67888777654 56999999999999764            45677888888988888 99999


Q ss_pred             ecCCCCChHHHHHHHHHHcCC
Q 028507          152 SAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ||++|.|++++|++|.+.+.+
T Consensus       180 SA~~g~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          180 SAKTKEGVREVFETATRAALQ  200 (207)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHS
T ss_pred             eCCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999998753

>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=100.00  E-value=1.6e-32  Score=196.92  Aligned_cols=166  Identities=34%  Similarity=0.530  Sum_probs=126.7

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCc
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      ++..+.+||+++|++|+|||||+++|.++.+...+.++.+..+. ..+..++..+.+.+||+||++.+...+..+++++|
T Consensus         3 ~~~~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   81 (182)
T 3bwd_D            3 MSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (182)
T ss_dssp             ----CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCS
T ss_pred             CCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCC
Confidence            34567899999999999999999999998887776666654332 22344556678899999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccC----------CCHHHHHHHHHhcCC-eEEEe
Q 028507           84 VAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQ----------VSIEEGEAKSRELNV-MFIET  151 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~  151 (208)
                      ++++|||++++.+++.+. .|+..+.... +++|+++|+||+|+.+.+.          +...+...++..+++ +++++
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  160 (182)
T 3bwd_D           82 VFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIEC  160 (182)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEE
Confidence            999999999999999987 7888887765 4799999999999876543          467888889998897 99999


Q ss_pred             ecCCCCChHHHHHHHHHHcC
Q 028507          152 SAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ||++|.|++++|++|.+.+.
T Consensus       161 Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          161 SSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             CTTTCTTHHHHHHHHHHHHS
T ss_pred             ECCCCCCHHHHHHHHHHHHh
Confidence            99999999999999998764

>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=100.00  E-value=2.7e-31  Score=194.35  Aligned_cols=163  Identities=31%  Similarity=0.513  Sum_probs=139.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|.+|+|||||+++|..+.+...+.++.+ +.....+.+++..+.+.+||+||++.+...+..++..+|++
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  105 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVF  105 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            35689999999999999999999999988777777765 44556667788888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc------------CCCHHHHHHHHHhcCC-eEEEe
Q 028507           86 VVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR------------QVSIEEGEAKSRELNV-MFIET  151 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~  151 (208)
                      |+|||++++.+++.+. .|+..+.... .++|+++|+||+|+.+..            .+...+...++..+++ +++++
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  184 (204)
T 4gzl_A          106 LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  184 (204)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEe
Confidence            9999999999999986 7888887765 679999999999987643            3777888899999887 69999


Q ss_pred             ecCCCCChHHHHHHHHHHc
Q 028507          152 SAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~  170 (208)
                      ||++|.|++++|++|.+.+
T Consensus       185 SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          185 SALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             CTTTCTTHHHHHHHHHHTT
T ss_pred             eCCCCCCHHHHHHHHHHHh
Confidence            9999999999999998765

>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=99.98  E-value=1.3e-30  Score=189.00  Aligned_cols=164  Identities=30%  Similarity=0.490  Sum_probs=135.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCc--CCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-hhhchhhhccCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDK--FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-FRSLIPSYIRDSS   83 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d   83 (208)
                      .+.+||+|+|.+|||||||+++|.+..  +... .++++.+.....+.+++..+.+.+||++|.+. +..+...+++.+|
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~   82 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-XEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD   82 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCcc-ccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCC
Confidence            457999999999999999999999643  3333 33455666667778889888999999999776 4556677788999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      ++++|||++++++|+.+..|+..+.... ..++|+++|+||+|+.+.+.+...+...++..++++++++||++|.|++++
T Consensus        83 ~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~l  162 (192)
T 2cjw_A           83 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKEL  162 (192)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHH
Confidence            9999999999999999999998887653 357999999999999877778888888888888999999999999999999


Q ss_pred             HHHHHHHcC
Q 028507          163 FRKIAAALP  171 (208)
Q Consensus       163 ~~~l~~~~~  171 (208)
                      |++|.+.+.
T Consensus       163 f~~l~~~~~  171 (192)
T 2cjw_A          163 FEGIVRQVR  171 (192)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999874

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.98  E-value=2.4e-31  Score=193.52  Aligned_cols=164  Identities=18%  Similarity=0.257  Sum_probs=129.6

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCc
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      +..+.+||+|+|.+|+|||||+++|.++.+.. .+.++.+...  ..+....  +.+.||||||++.+..++..+++.+|
T Consensus        13 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d   88 (199)
T 4bas_A           13 QSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV--ETFEKGR--VAFTVFDMGGAKKFRGLWETYYDNID   88 (199)
T ss_dssp             ---CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE--EEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCS
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE--EEEEeCC--EEEEEEECCCCHhHHHHHHHHHhcCC
Confidence            34578999999999999999999999999877 6777776433  3334444  78999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcC--------CCCcEEEEEeCCCCCcccCCCHHHHHHH------HHhcCCeEE
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERG--------SDVIIVLVGNKTDLVEKRQVSIEEGEAK------SRELNVMFI  149 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--------~~~piivv~nK~D~~~~~~~~~~~~~~~------~~~~~~~~~  149 (208)
                      ++|+|||+++++++..+..|+..+.....        .++|+++|+||+|+.+...  ..+....      +...+++++
T Consensus        89 ~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~  166 (199)
T 4bas_A           89 AVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHPFVIF  166 (199)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSCEEEE
T ss_pred             EEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCeeEEE
Confidence            99999999999999999999888865421        2699999999999976532  2222111      144677999


Q ss_pred             EeecCCCCChHHHHHHHHHHcCCCc
Q 028507          150 ETSAKAGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~~~~  174 (208)
                      ++||+++.|++++|++|.+.+.+..
T Consensus       167 ~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          167 ASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             ECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             EeeCCCccCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999886543

>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=99.97  E-value=4.6e-32  Score=196.88  Aligned_cols=165  Identities=22%  Similarity=0.244  Sum_probs=132.9

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCC-----------CCCccceeeEEEEE-EECCEEEEEEEEEcCCchhhh
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNT-----------YQATIGIDFLSKTM-YLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~-----------~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      ...+.+||+|+|++|+|||||++.+.+ .+...           ..++.+.++....+ .+++..+.+.+|||||++.+.
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   88 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYN   88 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCS
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHH
Confidence            345689999999999999999965554 44333           22344444433333 456677899999999999999


Q ss_pred             hchhhhccCCcEEEEEEeCC------ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC
Q 028507           73 SLIPSYIRDSSVAVVVYDVA------SRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV  146 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~------~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~  146 (208)
                      .++..+++++|++|+|||++      +.+++..+..|+..+. ....++|+++|+||+|+.+.  ...+++..++..+++
T Consensus        89 ~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~-~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~  165 (198)
T 3t1o_A           89 ASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG-LTLDDVPIVIQVNKRDLPDA--LPVEMVRAVVDPEGK  165 (198)
T ss_dssp             HHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTT-CCTTSSCEEEEEECTTSTTC--CCHHHHHHHHCTTCC
T ss_pred             HHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhc-cccCCCCEEEEEEchhcccc--cCHHHHHHHHHhcCC
Confidence            99999999999999999999      5567777878877773 23367999999999998653  678889999999999


Q ss_pred             -eEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          147 -MFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       147 -~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                       +++++||++|.|++++|++|.+.+.+.
T Consensus       166 ~~~~~~Sa~~~~gv~~l~~~l~~~i~~~  193 (198)
T 3t1o_A          166 FPVLEAVATEGKGVFETLKEVSRLVLAR  193 (198)
T ss_dssp             SCEEECBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             ceEEEEecCCCcCHHHHHHHHHHHHHHH
Confidence             999999999999999999999887543

>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=99.97  E-value=7e-30  Score=184.70  Aligned_cols=162  Identities=19%  Similarity=0.280  Sum_probs=130.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCc-CCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDK-FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ..+.+||+|+|.+|+|||||+++|.+.. +...+.++.+  .....+.+++  +.+.+||+||++.+...+..++.++|+
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~   93 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQA   93 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCE
Confidence            3568999999999999999999999887 5555666655  3444555555  679999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCC
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERG---SDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAG  156 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~  156 (208)
                      +|+|||+++++++..+..|+..+.....   .++|+++|+||+|+.+.  ...++....+.     ..+++++++||+++
T Consensus        94 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  171 (190)
T 2h57_A           94 IIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA--VTSVKVSQLLCLENIKDKPWHICASDAIKG  171 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC--CCHHHHHHHhChhhccCCceEEEEccCCCC
Confidence            9999999999999999999988876543   47999999999999653  34455555543     23568999999999


Q ss_pred             CChHHHHHHHHHHcCCC
Q 028507          157 FNIKPLFRKIAAALPGM  173 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~  173 (208)
                      .|++++|++|.+.+.+.
T Consensus       172 ~gi~~l~~~l~~~i~~~  188 (190)
T 2h57_A          172 EGLQEGVDWLQDQIQTV  188 (190)
T ss_dssp             BTHHHHHHHHHHHC---
T ss_pred             cCHHHHHHHHHHHHHHh
Confidence            99999999999988543

>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=99.97  E-value=3.5e-29  Score=182.42  Aligned_cols=165  Identities=36%  Similarity=0.698  Sum_probs=146.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..++|+|+|++|+|||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||++|++.+......++..++++++
T Consensus         4 ~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~   83 (199)
T 2f9l_A            4 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALL   83 (199)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEE
Confidence            46999999999999999999999999888888888888888888899988899999999999998888888899999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++.++..+..|+..+........|+++++||+|+.+.+.....++..++...++.++++|++++.++.++|++|.
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l~  163 (199)
T 2f9l_A           84 VYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNIL  163 (199)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999998998888766556789999999999987777788888999999999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       164 ~~~~~  168 (199)
T 2f9l_A          164 TEIYR  168 (199)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88754

>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=99.97  E-value=1.7e-30  Score=187.70  Aligned_cols=161  Identities=22%  Similarity=0.325  Sum_probs=130.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|+|||||+++|.++.+...+.++.+.++..  +...+  +.+.+||+||++.+..++..++..+|++|
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   95 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIV   95 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EEeCC--EEEEEEECCCCHhHHHHHHHHHccCCEEE
Confidence            457999999999999999999999998887777777765543  34444  77999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||+++++++..+..|+..+.... ..++|+++|+||+|+.+..  ...+......     ..+++++++||++|.|++
T Consensus        96 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~  173 (188)
T 1zd9_A           96 YMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNID  173 (188)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCCCCHH
Confidence            9999999999999999988886543 2579999999999996542  2233222221     234589999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028507          161 PLFRKIAAALPGM  173 (208)
Q Consensus       161 ~~~~~l~~~~~~~  173 (208)
                      ++|++|.+.+.+.
T Consensus       174 ~l~~~l~~~~~~~  186 (188)
T 1zd9_A          174 ITLQWLIQHSKSR  186 (188)
T ss_dssp             HHHHHHHHTCC--
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999987543

>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=99.97  E-value=4.9e-29  Score=180.58  Aligned_cols=164  Identities=35%  Similarity=0.687  Sum_probs=148.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ...++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+++...+..++..+++++
T Consensus        27 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i  106 (191)
T 1oix_A           27 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGAL  106 (191)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEE
Confidence            34689999999999999999999999988888899888888888889998888999999999998888888899999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||+++..+++.+..|+..+........|+++++||+|+.+.+.....++..++...++.++++|++++.+++++|++|
T Consensus       107 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~l  186 (191)
T 1oix_A          107 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI  186 (191)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999998889888876655678999999999998777777888899999999999999999999999999999


Q ss_pred             HHHc
Q 028507          167 AAAL  170 (208)
Q Consensus       167 ~~~~  170 (208)
                      .+.+
T Consensus       187 ~~~i  190 (191)
T 1oix_A          187 LTEI  190 (191)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8765

>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=99.97  E-value=2.4e-30  Score=183.75  Aligned_cols=159  Identities=20%  Similarity=0.319  Sum_probs=127.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.++|+|+|++|+|||||+++|.++.+.. +.++.+.  ....+.+++  +.+.+||+||++.+...+..+++.+|++|+
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   80 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGF--NVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   80 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSE--EEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCcc--ceEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEEE
Confidence            56999999999999999999999888753 4455543  334455554  679999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHH-----HHhcCCeEEEeecCCCCChHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAK-----SRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      |||+++++++..+..|+..+..... .++|+++|+||+|+.+...  ..+....     +...+++++++||+++.|+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  158 (171)
T 1upt_A           81 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLDE  158 (171)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCHHH
Confidence            9999999999999888888765432 5799999999999976432  2222222     223456899999999999999


Q ss_pred             HHHHHHHHcCCC
Q 028507          162 LFRKIAAALPGM  173 (208)
Q Consensus       162 ~~~~l~~~~~~~  173 (208)
                      +|++|.+.+.+.
T Consensus       159 l~~~l~~~i~~~  170 (171)
T 1upt_A          159 AMEWLVETLKSR  170 (171)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHhhc
Confidence            999999987543

>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=99.97  E-value=1.4e-30  Score=183.81  Aligned_cols=156  Identities=21%  Similarity=0.325  Sum_probs=123.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|++|+|||||+++|.++.+.. +.++.+.  ....+...+  +.+.+||+||++.+..++..++.++|++++||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGF--NVETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSC--CEEEEECSS--CEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCce--eEEEEEECC--EEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999888754 4555553  233444444  67999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      |+++++++..+..|+..+.... ..+.|+++|+||+|+.+..  ...+......     ..+++++++||++|.|++++|
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            9999999999999988876542 3579999999999996542  2233322221     234579999999999999999


Q ss_pred             HHHHHHcCC
Q 028507          164 RKIAAALPG  172 (208)
Q Consensus       164 ~~l~~~~~~  172 (208)
                      ++|.+.+.+
T Consensus       154 ~~l~~~i~~  162 (164)
T 1r8s_A          154 DWLSNQLRN  162 (164)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHhh
Confidence            999998753

>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=99.97  E-value=9.9e-30  Score=185.25  Aligned_cols=157  Identities=22%  Similarity=0.268  Sum_probs=123.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|++|+|||||+++|.++.+. .+.++.+.+  ...+.+++  +.+.+|||||++.+..++..+++.+|+++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   97 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   97 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEE
Confidence            56799999999999999999999988764 344554443  34555666  78999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----------------cCCeE
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----------------LNVMF  148 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~  148 (208)
                      +|||+++++++..+..|+..+.... ..++|+++|+||+|+.+  ....+++..++..                 .++++
T Consensus        98 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (198)
T 1f6b_A           98 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  175 (198)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEE
Confidence            9999999999999999998886643 35799999999999965  4566777766553                 24589


Q ss_pred             EEeecCCCCChHHHHHHHHHHc
Q 028507          149 IETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      +++||++|.|++++|++|.+.+
T Consensus       176 ~~~SA~~g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          176 FMCSVLKRQGYGEGFRWMAQYI  197 (198)
T ss_dssp             EECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            9999999999999999998764

>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=99.97  E-value=2.5e-29  Score=181.95  Aligned_cols=156  Identities=23%  Similarity=0.249  Sum_probs=127.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|++|+|||||+++|.++.+. .+.++.+.  ....+.+++  +.+.+||+||++.+..++..+++.+|++|
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   95 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHP--TSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIV   95 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSC--EEEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCC--CeEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            46789999999999999999999988875 34455444  345566666  78999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh------------cCCeEEEeec
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE------------LNVMFIETSA  153 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~sa  153 (208)
                      +|||++++++++.+..|+..+.... ..++|+++|+||+|+.+  ....++....+..            .+++++++||
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  173 (190)
T 1m2o_B           96 FLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSV  173 (190)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBT
T ss_pred             EEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeEC
Confidence            9999999999999999998886543 35799999999999965  4556666665543            3458999999


Q ss_pred             CCCCChHHHHHHHHHH
Q 028507          154 KAGFNIKPLFRKIAAA  169 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~  169 (208)
                      ++|.|++++|++|.+.
T Consensus       174 ~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          174 VMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTTBSHHHHHHHHHTT
T ss_pred             CcCCCHHHHHHHHHhh
Confidence            9999999999999864

>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=99.97  E-value=4.3e-29  Score=179.83  Aligned_cols=159  Identities=22%  Similarity=0.334  Sum_probs=129.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|++|+|||||+++|.++. ...+.++.+..  ...+.+++  +.+.+|||||++.+...+..+++++|++|
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            467999999999999999999999888 55666666643  34444554  67999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++++++.+..|+..+.... ..++|+++|+||+|+.+...  ..+......     ..+++++++||+++.|++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALS--CNAIQEALELDSIRSHHWRIQGCSAVTGEDLL  168 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCC--HHHHHHHhChhhccCCceEEEEeeCCCCCCHH
Confidence            9999999999999999988886643 25799999999999966432  334333322     345689999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|++|.+.+.+
T Consensus       169 ~l~~~l~~~i~~  180 (186)
T 1ksh_A          169 PGIDWLLDDISS  180 (186)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

>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=99.97  E-value=8.5e-30  Score=183.81  Aligned_cols=164  Identities=20%  Similarity=0.276  Sum_probs=126.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+|+|.+|+|||||+++|.++.+. .+.++.+..  ...+.+++  +.+.+||+||++++...+..++.++|++|
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   88 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   88 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            46799999999999999999999988775 445555433  33444555  78999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++++++.+..|+..+.... ..+.|+++|+||+|+.+.  ....+......     ..+++++++||++|.|++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (187)
T 1zj6_A           89 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLC  166 (187)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHH
Confidence            9999999999999999998887653 256999999999999653  33444444432     345689999999999999


Q ss_pred             HHHHHHHHHcCCCcccc
Q 028507          161 PLFRKIAAALPGMETLS  177 (208)
Q Consensus       161 ~~~~~l~~~~~~~~~~~  177 (208)
                      ++|++|.+.+.......
T Consensus       167 ~l~~~l~~~~~~~~~~~  183 (187)
T 1zj6_A          167 QGLEWMMSRLKIRLEHH  183 (187)
T ss_dssp             HHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHHHHhhhh
Confidence            99999999886655443

>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=99.97  E-value=2.5e-30  Score=187.48  Aligned_cols=160  Identities=19%  Similarity=0.336  Sum_probs=122.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|++|+|||||+++|.++.+.. +.++.+  .....+...+  +.+.+||+||++.+...+..++..+|++
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~i  100 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGL  100 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETT--EEEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEE
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCc--eeEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            3568999999999999999999999887653 345544  3334445555  7899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH-----hcCCeEEEeecCCCCCh
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-----ELNVMFIETSAKAGFNI  159 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i  159 (208)
                      |+|||+++++++..+..|+..+.... ..++|+++|+||+|+.+..  ...+......     ..+++++++||++|.|+
T Consensus       101 ilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi  178 (192)
T 2b6h_A          101 IFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGL  178 (192)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCH
Confidence            99999999999999999988876543 2569999999999996542  2233322221     23457999999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028507          160 KPLFRKIAAALPG  172 (208)
Q Consensus       160 ~~~~~~l~~~~~~  172 (208)
                      +++|++|.+.+.+
T Consensus       179 ~~l~~~l~~~i~~  191 (192)
T 2b6h_A          179 YDGLDWLSHELSK  191 (192)
T ss_dssp             HHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988753

>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=99.97  E-value=1.3e-29  Score=181.99  Aligned_cols=158  Identities=20%  Similarity=0.307  Sum_probs=125.0

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ...+.+||+|+|.+|+|||||+++|.++.+ ....++.+...  ..+.+++  +.+.+||+||++.+...+..++..+|+
T Consensus        17 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (181)
T 2h17_A           17 RGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEF   91 (181)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCE
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCE
Confidence            345789999999999999999999998887 44445554333  3444555  789999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcCCeEEEeecCCCCC
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELNVMFIETSAKAGFN  158 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~  158 (208)
                      +|+|||+++++++..+..|+..+.... ..++|+++|+||+|+.+.  ....+.....     ...+++++++||++|.|
T Consensus        92 ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~g  169 (181)
T 2h17_A           92 VIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEG  169 (181)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCcC
Confidence            999999999999999999888886543 356999999999999653  2344444433     22356899999999999


Q ss_pred             hHHHHHHHHHH
Q 028507          159 IKPLFRKIAAA  169 (208)
Q Consensus       159 i~~~~~~l~~~  169 (208)
                      ++++|++|.+.
T Consensus       170 i~~l~~~l~~~  180 (181)
T 2h17_A          170 LCQGLEWMMSR  180 (181)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhh
Confidence            99999999764

>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=99.97  E-value=2.8e-30  Score=185.97  Aligned_cols=166  Identities=21%  Similarity=0.370  Sum_probs=123.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC--cCCCCCCCccceeeEEEEEEE---CCEEEEEEEEEcCCchhhhhchhhhccCCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD--KFDNTYQATIGIDFLSKTMYL---EDRTVRLQLWDTAGQERFRSLIPSYIRDSS   83 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~--~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   83 (208)
                      .+||+|+|++|+|||||+++|.+.  .+...+.++.+.++....+.+   ++..+.+.+||++|++.+..+...++.+++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            589999999999999999999985  455556777777766555443   234578999999999999998899999999


Q ss_pred             EEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC---HHHHHHHHHhcCCe----EEEeecCC
Q 028507           84 VAVVVYDVASR-QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS---IEEGEAKSRELNVM----FIETSAKA  155 (208)
Q Consensus        84 ~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~---~~~~~~~~~~~~~~----~~~~sa~~  155 (208)
                      ++++|||++++ .+++.+..|+..+.... ++.|+++|+||+|+.+.+.+.   ......++..++++    ++++||++
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  160 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE  160 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTS
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEeccc
Confidence            99999999987 57899999999887654 469999999999987654332   23345556666776    99999999


Q ss_pred             CC-ChHHHHHHHHHHcCCCcc
Q 028507          156 GF-NIKPLFRKIAAALPGMET  175 (208)
Q Consensus       156 ~~-~i~~~~~~l~~~~~~~~~  175 (208)
                      +. ++.++++.|.+.+.+...
T Consensus       161 ~~~~~~~l~~~i~~~~~~~~~  181 (184)
T 2zej_A          161 ESDALAKLRKTIINESLNFKI  181 (184)
T ss_dssp             CCHHHHHHHHHHHHHHHCC--
T ss_pred             CchhHHHHHHHHHHHHhcccc
Confidence            97 999999999988765443

>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=99.97  E-value=3.1e-29  Score=180.07  Aligned_cols=159  Identities=22%  Similarity=0.351  Sum_probs=125.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|++|+|||||+++|.+..+ ..+.++.+..  ...+.+++  +.+.+||+||++.+...+..++..+|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFN--IKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTEE--EEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCeE--EEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4679999999999999999999998754 2344555533  33455554  68999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++++++.+..|+..+.... ..++|+++|+||+|+.+...  ..+.....     ...+++++++||++|.|++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQ  166 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHH
Confidence            9999999999999988888775432 35799999999999976433  33333222     1234689999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|++|.+.+.+
T Consensus       167 ~l~~~l~~~~~~  178 (181)
T 1fzq_A          167 DGMNWVCKNVNA  178 (181)
T ss_dssp             HHHHHHHHTC--
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.96  E-value=6e-30  Score=184.82  Aligned_cols=160  Identities=20%  Similarity=0.294  Sum_probs=127.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+++|++|+|||||+++|..+.+.. +.++.+.  ....+..++  +.+.+|||||++.+...+..+++.+|++|
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~--~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGV--NLETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTC--CEEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCce--EEEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            568999999999999999999999877643 4455543  333445554  67999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  160 (208)
                      +|||+++++++..+..|+..+.... ..++|+++|+||+|+.+...  ..+.....     ...+++++++||+++.|++
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLV  172 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCHH
Confidence            9999999999999988888876543 25799999999999965432  23322222     2335689999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028507          161 PLFRKIAAALPGM  173 (208)
Q Consensus       161 ~~~~~l~~~~~~~  173 (208)
                      ++|++|.+.+.+.
T Consensus       173 ~l~~~l~~~i~~~  185 (189)
T 2x77_A          173 EGMDWLVERLREQ  185 (189)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988544

>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=99.96  E-value=2.5e-28  Score=190.82  Aligned_cols=162  Identities=30%  Similarity=0.491  Sum_probs=142.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..++|+++|.+|+|||||+++|.++.+...+.++++. .....+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~  232 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLI  232 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEE-EEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCcccc-eeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEE
Confidence            4589999999999999999999999887777777654 345567788888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEeec
Q 028507           88 VYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIETSA  153 (208)
Q Consensus        88 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa  153 (208)
                      |||++++.++..+. .|+..+.... .++|+++|+||+|+.+.            +.+...++..++...++ +++++||
T Consensus       233 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  311 (332)
T 2wkq_A          233 CFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  311 (332)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecC
Confidence            99999999999986 7888887655 37999999999998653            56778889999999997 9999999


Q ss_pred             CCCCChHHHHHHHHHHcC
Q 028507          154 KAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~~~  171 (208)
                      ++|.|++++|+.|.+.+.
T Consensus       312 ~~~~gi~~l~~~l~~~~~  329 (332)
T 2wkq_A          312 LTQRGLKTVFDEAIRAVL  329 (332)
T ss_dssp             TTCTTHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHh
Confidence            999999999999998764

>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=99.96  E-value=2e-29  Score=183.27  Aligned_cols=163  Identities=17%  Similarity=0.203  Sum_probs=120.7

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhch---hhhcc
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLI---PSYIR   80 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~---~~~~~   80 (208)
                      +..+.+||+|+|.+|||||||++++.+. +..................+. +..+.+.+||++|++.|....   ..+++
T Consensus        16 ~~~~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~   94 (196)
T 3llu_A           16 FQGSKPRILLMGLRRSGKSSIQKVVFHK-MSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFR   94 (196)
T ss_dssp             ----CCEEEEEESTTSSHHHHHHHHHSC-CCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHH
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHHhc-CCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccc
Confidence            3457899999999999999999987764 322222222222222232332 455789999999999987776   78899


Q ss_pred             CCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc-------ccCCCHHHHHHHHH----hcCCe
Q 028507           81 DSSVAVVVYDVASR--QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE-------KRQVSIEEGEAKSR----ELNVM  147 (208)
Q Consensus        81 ~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~-------~~~~~~~~~~~~~~----~~~~~  147 (208)
                      ++|++|+|||++++  +++..+..|+..+... .+++|+++|+||+|+.+       .+.+...+...++.    ..++.
T Consensus        95 ~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  173 (196)
T 3llu_A           95 GTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLS  173 (196)
T ss_dssp             TCSEEEEEEETTSCCHHHHHHHHHHHHHHHHH-CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEE
T ss_pred             cCCEEEEEEECCCchHHHHHHHHHHHHHHHhc-CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcc
Confidence            99999999999987  6677777777776443 35799999999999865       23444555667777    66789


Q ss_pred             EEEeecCCCCChHHHHHHHHHHc
Q 028507          148 FIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       148 ~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++++||++ .|++++|+.|++.+
T Consensus       174 ~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          174 FYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             EEEECTTS-THHHHHHHHHHHHT
T ss_pred             eEEEEech-hhHHHHHHHHHHHh
Confidence            99999999 99999999998865

>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=99.96  E-value=4.9e-29  Score=178.93  Aligned_cols=159  Identities=22%  Similarity=0.332  Sum_probs=124.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.++|+++|++|+|||||+++|.++.+ ..+.++.+..  ...+.+++  +.+.+||+||++.+...+..++..+|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            5689999999999999999999998777 4445555533  34445555  78999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----cCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----LNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++++++.+..|+..+.... ..++|+++|+||+|+.+.  ....+.......     .+++++++||+++.|++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGIT  168 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHH
Confidence            9999999999999999888886653 367999999999998653  234444443322     24579999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|++|.+.+.+
T Consensus       169 ~l~~~l~~~~~~  180 (183)
T 1moz_A          169 EGLDWLIDVIKE  180 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988753

>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=99.96  E-value=1.1e-28  Score=174.66  Aligned_cols=155  Identities=17%  Similarity=0.250  Sum_probs=118.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh------hchhhhcc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR------SLIPSYIR   80 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~   80 (208)
                      |+.++|+++|++|+|||||+++|.+..+.....++.+.+.....+.+++  ..+.+|||||+..+.      .+...++.
T Consensus         1 m~~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~   78 (165)
T 2wji_A            1 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYII   78 (165)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHh
Confidence            4568999999999999999999998876555556666665566666666  579999999988764      23344554


Q ss_pred             --CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           81 --DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        81 --~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                        ++|++++|+|+++.+.   ...|+..+..   .++|+++|+||+|+.+.+.+.. +...++..++++++++||++|.|
T Consensus        79 ~~~~~~~i~v~D~~~~~~---~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~  151 (165)
T 2wji_A           79 NEKPDLVVNIVDATALER---NLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMG  151 (165)
T ss_dssp             HHCCSEEEEEEETTCHHH---HHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBS
T ss_pred             cCCCCEEEEEecCCchhH---hHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCC
Confidence              8999999999987543   3456666654   3599999999999866554432 35677778889999999999999


Q ss_pred             hHHHHHHHHHHc
Q 028507          159 IKPLFRKIAAAL  170 (208)
Q Consensus       159 i~~~~~~l~~~~  170 (208)
                      ++++|++|.+.+
T Consensus       152 v~~l~~~l~~~~  163 (165)
T 2wji_A          152 IEELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998876

>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=99.93  E-value=2.3e-31  Score=194.61  Aligned_cols=162  Identities=31%  Similarity=0.530  Sum_probs=135.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.++.+...+.++.+... ...+..++..+.+.+||+||++.+...+..++.++|++|
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL  106 (204)
Confidence            4679999999999999999999998888766666665333 444556666788999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc------------CCCHHHHHHHHHhcCC-eEEEee
Q 028507           87 VVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR------------QVSIEEGEAKSRELNV-MFIETS  152 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~s  152 (208)
                      +|||++++.++..+. .|+..+.... +++|+++|+||+|+.+..            .+...+...++...++ +++++|
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vS  185 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  185 (204)
Confidence            999999999999986 7887776554 369999999999997543            4555667777888887 899999


Q ss_pred             cCCCCChHHHHHHHHHHc
Q 028507          153 AKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~  170 (208)
                      |++|.|++++|++|.+.+
T Consensus       186 A~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
Confidence            999999999999998754

>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=99.96  E-value=2.6e-29  Score=189.78  Aligned_cols=165  Identities=18%  Similarity=0.254  Sum_probs=122.9

Q ss_pred             CCCCCceeEEEEcCC---------CCCHHHHHHHhhc---CcCCCCCCCcc-ceeeEEEE--------------EEECCE
Q 028507            4 VSALAKYKLVFLGDQ---------SVGKTSIITRFMY---DKFDNTYQATI-GIDFLSKT--------------MYLEDR   56 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~---------~~GKstli~~l~~---~~~~~~~~~~~-~~~~~~~~--------------~~~~~~   56 (208)
                      ...++.+||+|+|.+         |||||||+++|++   ..+...+.+++ +.++....              ..+++.
T Consensus        14 ~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   93 (255)
T 3c5h_A           14 LYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCV   93 (255)
T ss_dssp             SSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC-------
T ss_pred             CCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCc
Confidence            345678999999999         9999999999998   55555555554 33322111              113456


Q ss_pred             EEEEEEEE-----------------------cCCchhhhhchhhhcc---------------------CCcEEEEEEeCC
Q 028507           57 TVRLQLWD-----------------------TAGQERFRSLIPSYIR---------------------DSSVAVVVYDVA   92 (208)
Q Consensus        57 ~~~~~i~D-----------------------~~G~~~~~~~~~~~~~---------------------~~d~~i~v~d~~   92 (208)
                      .+.+.|||                       ++|++++..++..++.                     ++|++|+|||++
T Consensus        94 ~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t  173 (255)
T 3c5h_A           94 ECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVS  173 (255)
T ss_dssp             --CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECB
T ss_pred             EEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECC
Confidence            68899999                       6666666666666666                     799999999999


Q ss_pred             Ch--hhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-cCCeEEEeecCCCCChHHHHHHHHH
Q 028507           93 SR--QSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-LNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        93 ~~--~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ++  ++++.+..|+..+... ...++|+++|+||+|+.+.+.+  .+.+.++.. .+++++++||+++.|++++|++|.+
T Consensus       174 ~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~  251 (255)
T 3c5h_A          174 RGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQ  251 (255)
T ss_dssp             C----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            98  8999999999998765 3357999999999999655443  466667765 4789999999999999999999988


Q ss_pred             Hc
Q 028507          169 AL  170 (208)
Q Consensus       169 ~~  170 (208)
                      .+
T Consensus       252 ~l  253 (255)
T 3c5h_A          252 LI  253 (255)
T ss_dssp             HH
T ss_pred             Hh
Confidence            76

>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=99.96  E-value=1.8e-27  Score=176.87  Aligned_cols=163  Identities=17%  Similarity=0.164  Sum_probs=117.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch------h----hhhchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE------R----FRSLIP   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~------~----~~~~~~   76 (208)
                      .+.++|+|+|.+|+|||||+++|++..+.....+..+.+.........+  ..+.||||||+.      .    +.. +.
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~-~~  103 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTT-IT  103 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHH-HH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHH-HH
Confidence            5679999999999999999999998877533334444444444445555  679999999983      2    222 23


Q ss_pred             hhccCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHH---HHHHHHHhcC--CeEE
Q 028507           77 SYIRDSSVAVVVYDVASRQSFL--NTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIE---EGEAKSRELN--VMFI  149 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~---~~~~~~~~~~--~~~~  149 (208)
                      .++..+|++|+|||++++.++.  ....|+..+... ..++|+++|+||+|+.+.+.+...   ....++...+  ++++
T Consensus       104 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (228)
T 2qu8_A          104 ALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSV-FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFS  182 (228)
T ss_dssp             HHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC-C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEE
T ss_pred             HhhccccEEEEEEecccccCcchHHHHHHHHHHHHh-hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEE
Confidence            4467889999999999887764  223455555433 236999999999999877666654   4556666776  7999


Q ss_pred             EeecCCCCChHHHHHHHHHHcCCC
Q 028507          150 ETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ++||++|.|++++|++|.+.+.+.
T Consensus       183 ~~SA~~g~gi~~l~~~l~~~i~~~  206 (228)
T 2qu8_A          183 SFSTLTGVGVEQAKITACELLKND  206 (228)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             EEecccCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999988544

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=9.7e-28  Score=171.36  Aligned_cols=157  Identities=17%  Similarity=0.195  Sum_probs=121.2

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      ...+.++|+|+|++|+|||||+++|.++.+...+.++.+.+.....+.+++  ..+.+|||||++.+..++..++..+|+
T Consensus         4 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~   81 (178)
T 2lkc_A            4 MVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND--KKITFLDTPGHEAFTTMRARGAQVTDI   81 (178)
T ss_dssp             TCCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT--EEEEESCCCSSSSSSCSCCSSCCCCCE
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC--ceEEEEECCCCHHHHHHHHHHHhhCCE
Confidence            345679999999999999999999999988777666666666556666777  458899999999999999899999999


Q ss_pred             EEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-------C--CeEEEee
Q 028507           85 AVVVYDVASR---QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-------N--VMFIETS  152 (208)
Q Consensus        85 ~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-------~--~~~~~~s  152 (208)
                      +|+|||++++   .+++.+       ......++|+++|+||+|+.+.   ...+........       +  ++++++|
T Consensus        82 ~i~v~d~~~~~~~~~~~~l-------~~~~~~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  151 (178)
T 2lkc_A           82 VILVVAADDGVMPQTVEAI-------NHAKAANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLS  151 (178)
T ss_dssp             EEEEEETTCCCCHHHHHHH-------HHHGGGSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECC
T ss_pred             EEEEEECCCCCcHHHHHHH-------HHHHhCCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEe
Confidence            9999999873   333322       2222346999999999999653   223333333222       2  4899999


Q ss_pred             cCCCCChHHHHHHHHHHcCCC
Q 028507          153 AKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~~~  173 (208)
                      |++|.|++++|++|.+.+...
T Consensus       152 a~~~~gv~~l~~~l~~~~~~~  172 (178)
T 2lkc_A          152 AKTKEGLDHLLEMILLVSEME  172 (178)
T ss_dssp             SSSSHHHHHHHHHHHHHHHHT
T ss_pred             cCCCCCHHHHHHHHHHhhhhh
Confidence            999999999999999887543

>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=99.95  E-value=2.9e-27  Score=173.95  Aligned_cols=161  Identities=21%  Similarity=0.290  Sum_probs=113.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCE-EEEEEEEEcCCchhhhh-chhhhccCCcE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR-TVRLQLWDTAGQERFRS-LIPSYIRDSSV   84 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~-~~~~~~~~~d~   84 (208)
                      .+.+||+|+|++|+|||||+++|.++.+...+.++ +.+...  +.+++. .+.+.+|||||++.+.. ++..+++.+|+
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   81 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSI-TDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARA   81 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCC-SCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCc-ceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCE
Confidence            45799999999999999999999998887665443 333333  455533 47899999999999987 78888999999


Q ss_pred             EEEEEeCCChh-hHHHHHHHHH-HHHHh--cCCCCcEEEEEeCCCCCcccCCCH--HHHHH-------------------
Q 028507           85 AVVVYDVASRQ-SFLNTSKWID-EVRTE--RGSDVIIVLVGNKTDLVEKRQVSI--EEGEA-------------------  139 (208)
Q Consensus        85 ~i~v~d~~~~~-s~~~~~~~~~-~i~~~--~~~~~piivv~nK~D~~~~~~~~~--~~~~~-------------------  139 (208)
                      +|+|||+++.. ++.....++. .+...  ...++|+++|+||+|+.+......  .....                   
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~  161 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSS  161 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC---------
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCC
Confidence            99999999854 4555544444 33332  245699999999999976543111  01111                   


Q ss_pred             -------------HHH-hc--CCeEEEeecCCC------CChHHHHHHHHHHc
Q 028507          140 -------------KSR-EL--NVMFIETSAKAG------FNIKPLFRKIAAAL  170 (208)
Q Consensus       140 -------------~~~-~~--~~~~~~~sa~~~------~~i~~~~~~l~~~~  170 (208)
                                   ++. .+  ++.++++||++|      .|++++|++|.+.+
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~~  214 (214)
T 2fh5_B          162 STAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKIA  214 (214)
T ss_dssp             ---CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHHC
T ss_pred             ccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHhC
Confidence                         111 11  568999999999      99999999998764

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.95  E-value=4e-27  Score=182.26  Aligned_cols=161  Identities=22%  Similarity=0.336  Sum_probs=127.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC---CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-----hhchhhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD---NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-----RSLIPSYI   79 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~   79 (208)
                      ..+||+++|++|+|||||+++|+++...   ..+.+|.+...  ..+.+.+ .+.+.+||+||++.+     ...+..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~--~~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEH--SHLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEE--EEEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEE--EEEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            4689999999999999999999987432   13444444433  3444433 478999999999988     67788889


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCc--ccC----CCHHHHHHHHHhcC---CeE
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTER--GSDVIIVLVGNKTDLVE--KRQ----VSIEEGEAKSRELN---VMF  148 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D~~~--~~~----~~~~~~~~~~~~~~---~~~  148 (208)
                      +++|++|+|||++++++++.+..|+..+....  .+++|+++|+||+|+.+  .+.    ....++..++..+|   +++
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~  158 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIG  158 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEE
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEE
Confidence            99999999999999999999987766554432  35799999999999976  343    45577888888887   799


Q ss_pred             EEeecCCCCChHHHHHHHHHHcCC
Q 028507          149 IETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +++||++ .++.++|..+...+..
T Consensus       159 ~~tSa~~-~~i~e~~~~iv~~li~  181 (307)
T 3r7w_A          159 FPTSIWD-ESLYKAWSQIVCSLIP  181 (307)
T ss_dssp             EECCTTS-SHHHHHHHHHHHTTCS
T ss_pred             EEeeecC-ChHHHHHHHHHHHHcC
Confidence            9999999 8999999888876643

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.95  E-value=1.8e-27  Score=185.77  Aligned_cols=159  Identities=21%  Similarity=0.332  Sum_probs=121.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.++.+... .++.+...  ..+...+  +.+.||||||++.+..++..+++.+|++|
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~vi  237 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNV--ETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLI  237 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEE--EEEEETT--EEEEEEECC-----CCSHHHHHTTEEEEE
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEE--EEEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            3568999999999999999999998886433 34444333  3344454  67999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----cCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----LNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~  160 (208)
                      +|||++++.++..+..++..+.... ..++|+++|+||+|+.+...  ..+.......     .+++++++||++|.|++
T Consensus       238 lV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~  315 (329)
T 3o47_A          238 FVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLY  315 (329)
T ss_dssp             EEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHH
T ss_pred             EEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHH
Confidence            9999999999999988887775543 35799999999999976443  2333222221     24579999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|++|.+.+.+
T Consensus       316 el~~~l~~~l~~  327 (329)
T 3o47_A          316 EGLDWLSNQLRN  327 (329)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHh
Confidence            999999998754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.95  E-value=2.2e-27  Score=171.04  Aligned_cols=161  Identities=16%  Similarity=0.228  Sum_probs=126.6

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh------hchhhh
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR------SLIPSY   78 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~   78 (208)
                      +.++.++|+++|++|+|||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||+..+.      .+...+
T Consensus         3 ~~~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~   80 (188)
T 2wjg_A            3 SHMKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDY   80 (188)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHH
Confidence            346789999999999999999999998766555556666666666677766  679999999988764      334445


Q ss_pred             cc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC
Q 028507           79 IR--DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus        79 ~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      +.  .+|++++|+|.++   ++....|+..+..   .+.|+++|+||+|+.+.+.+. .....++..++++++++||+++
T Consensus        81 ~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~  153 (188)
T 2wjg_A           81 IINEKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKK  153 (188)
T ss_dssp             HHHHCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGT
T ss_pred             HhccCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCC
Confidence            53  5999999999875   4555667766654   458999999999987655444 3556777888999999999999


Q ss_pred             CChHHHHHHHHHHcCCCc
Q 028507          157 FNIKPLFRKIAAALPGME  174 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~~  174 (208)
                      .|++++|+++.+.+.+..
T Consensus       154 ~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          154 MGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             BSHHHHHHHHHHHHTTC-
T ss_pred             CCHHHHHHHHHHHHHhcc
Confidence            999999999999887654

>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=99.95  E-value=4.6e-27  Score=170.35  Aligned_cols=159  Identities=16%  Similarity=0.186  Sum_probs=109.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCC----------chhhhhch
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG----------QERFRSLI   75 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~   75 (208)
                      ....++|+|+|++|+|||||+++|++..+.....++.+.+........+.   .+.+|||||          .+.+..++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   96 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMI   96 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHH
Confidence            34579999999999999999999998876554444444444444444443   589999999          66777777


Q ss_pred             hhhccCC---cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH--HHHHH-HHHhcCCeEE
Q 028507           76 PSYIRDS---SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI--EEGEA-KSRELNVMFI  149 (208)
Q Consensus        76 ~~~~~~~---d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~--~~~~~-~~~~~~~~~~  149 (208)
                      ..++..+   |++++|+|++++.++.... ++..+..   .++|+++|+||+|+.+.+++..  .+... +....+++++
T Consensus        97 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (195)
T 1svi_A           97 ETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELI  172 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEE
T ss_pred             HHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceE
Confidence            7777766   9999999999876665532 2222222   4589999999999977654322  22222 2223467999


Q ss_pred             EeecCCCCChHHHHHHHHHHcC
Q 028507          150 ETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ++||+++.|++++|++|.+.+.
T Consensus       173 ~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          173 LFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHT
T ss_pred             EEEccCCCCHHHHHHHHHHHhc
Confidence            9999999999999999998764

>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=99.94  E-value=5e-27  Score=167.25  Aligned_cols=155  Identities=19%  Similarity=0.188  Sum_probs=116.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc--------hhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL--------IPSY   78 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   78 (208)
                      +.++|+|+|++|+|||||+++|.+..+. ....++++.+.....+.+++  ..+.+|||||...+...        ...+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQE   80 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECC--eEEEEEECCCcccchhHHHHHHHHHHHHH
Confidence            4589999999999999999999987642 23345555566667777777  35899999997643211        1235


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      ++.+|++++|||++++.+++ ...|+..+......++|+++|+||+|+.+...       .++...+.+++++||+++.|
T Consensus        81 ~~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~g  152 (172)
T 2gj8_A           81 IEQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEG  152 (172)
T ss_dssp             HHTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTT
T ss_pred             HHhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCC
Confidence            78999999999999887765 45677777766656799999999999854321       11223467899999999999


Q ss_pred             hHHHHHHHHHHcCC
Q 028507          159 IKPLFRKIAAALPG  172 (208)
Q Consensus       159 i~~~~~~l~~~~~~  172 (208)
                      ++++|++|.+.+..
T Consensus       153 v~~l~~~l~~~~~~  166 (172)
T 2gj8_A          153 VDVLRNHLKQSMGF  166 (172)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999988743

>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=99.94  E-value=4.6e-27  Score=169.53  Aligned_cols=156  Identities=23%  Similarity=0.307  Sum_probs=116.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCC-----------chhhhhchhhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG-----------QERFRSLIPSY   78 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~   78 (208)
                      +||+++|++|+|||||+++|.+..+...+.++.+....  .....    .+.+||+||           ++.+...+..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~--~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII--EIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCE--EEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeE--EEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            68999999999999999999998887666665554332  23333    589999999           56677777777


Q ss_pred             ccC-CcEEEEEEeCCChhhHHHH-HHHHHH--------H-HHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCe
Q 028507           79 IRD-SSVAVVVYDVASRQSFLNT-SKWIDE--------V-RTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVM  147 (208)
Q Consensus        79 ~~~-~d~~i~v~d~~~~~s~~~~-~~~~~~--------i-~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  147 (208)
                      ++. +++++++|++.+..++..+ ..|...        + ......++|+++|+||+|+.+..   ..+...++..++++
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~  152 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVP  152 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCC
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhh
Confidence            666 6766666666666677665 555432        2 22223569999999999987654   55677778877764


Q ss_pred             -------EEEeecCCCCChHHHHHHHHHHcCCCc
Q 028507          148 -------FIETSAKAGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       148 -------~~~~sa~~~~~i~~~~~~l~~~~~~~~  174 (208)
                             ++++||++|.|++++|++|.+.+.+.+
T Consensus       153 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  186 (190)
T 2cxx_A          153 LSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQ  186 (190)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC-
T ss_pred             hhccCCcEEEEecCCCCCHHHHHHHHHHhcchhh
Confidence                   799999999999999999999886543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.94  E-value=1.5e-26  Score=162.42  Aligned_cols=151  Identities=20%  Similarity=0.202  Sum_probs=107.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhchhhhccC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSLIPSYIRD   81 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~   81 (208)
                      +||+++|++|+|||||+++|.+..+. ....++.+.+.....+..++.  .+.+||+||...       +...+..++..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            68999999999999999999988753 233444555556666666664  689999999876       34455667899


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCChH
Q 028507           82 SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFNIK  160 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  160 (208)
                      +|++|+|+|++++.+..  ..++..+...  .++|+++|+||+|+.+..    .+...++ .+++ +++++||+++.|++
T Consensus        80 ~~~~i~v~d~~~~~~~~--~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv~  150 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQA--DYEVAEYLRR--KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGLE  150 (161)
T ss_dssp             CSEEEEEEESSSCCCHH--HHHHHHHHHH--HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSHH
T ss_pred             CCEEEEEEECCCcccHh--HHHHHHHHHh--cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCChH
Confidence            99999999999753322  2233333222  358999999999997653    2233344 5677 89999999999999


Q ss_pred             HHHHHHHHHcC
Q 028507          161 PLFRKIAAALP  171 (208)
Q Consensus       161 ~~~~~l~~~~~  171 (208)
                      ++|++|.+.++
T Consensus       151 ~l~~~l~~~l~  161 (161)
T 2dyk_A          151 ELLEAIWERLP  161 (161)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHhCc
Confidence            99999998763

>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=99.94  E-value=1.1e-25  Score=174.20  Aligned_cols=169  Identities=15%  Similarity=0.177  Sum_probs=130.4

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhh---------
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFR---------   72 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~---------   72 (208)
                      ++..+.-.|+++|.+|+|||||+|+|++.++.. ...+.++........... +  ..+.||||||+..+.         
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~--~~i~lvDTPG~~~~~~~~~l~~~~   82 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNE--AQIIFLDTPGIYEPKKSDVLGHSM   82 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTT--EEEEEEECCCCCCCCTTCHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCC--CeEEEEECcCCCccccchhHHHHH
Confidence            445677999999999999999999999988753 334444444444455555 4  679999999985433         


Q ss_pred             -hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC--CeEE
Q 028507           73 -SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN--VMFI  149 (208)
Q Consensus        73 -~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~  149 (208)
                       .....++..+|++++|+|++++.+......|+..+..   .++|+++|+||+|+.............+...++  .+++
T Consensus        83 ~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~  159 (308)
T 3iev_A           83 VEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIV  159 (308)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEE
T ss_pred             HHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEE
Confidence             4556678899999999999988777777766776655   358999999999997444445666677777765  6899


Q ss_pred             EeecCCCCChHHHHHHHHHHcCCCcccc
Q 028507          150 ETSAKAGFNIKPLFRKIAAALPGMETLS  177 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~~~~~~~  177 (208)
                      ++||++|.|++++|++|.+.+++.....
T Consensus       160 ~vSA~~g~gv~~L~~~l~~~l~~~~~~~  187 (308)
T 3iev_A          160 PISALKGANLDELVKTILKYLPEGEPLF  187 (308)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHSCBCCCSS
T ss_pred             EEeCCCCCCHHHHHHHHHHhCccCCCCC
Confidence            9999999999999999999997654433

>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=99.94  E-value=1.7e-26  Score=174.44  Aligned_cols=156  Identities=19%  Similarity=0.211  Sum_probs=122.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc------hhhhc-
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL------IPSYI-   79 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~-   79 (208)
                      .+.++|+++|++|+|||||+++|++..+.....++.+.+.....+...+  ..+.+||+||...+...      ...++ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            4579999999999999999999998776555556666666666666655  67999999998876542      24444 


Q ss_pred             -cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           80 -RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        80 -~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                       ..+|++|+|+|+++.++..   .|+..+..   .++|+++|+||+|+.+.+.+.. +...++..++++++++||++|.|
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~---~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg~~vi~~SA~~g~g  153 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSL---YLLLEILE---MEKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEG  153 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHH---HHHHHHHT---TTCCEEEEEECHHHHHHTTCCB-CHHHHHHHHCSCEEECCTTTCTT
T ss_pred             hcCCCEEEEEeCCCchhhHH---HHHHHHHh---cCCCEEEEEECcCCCCccchHH-HHHHHHHHcCCCEEEEEeeCCcC
Confidence             5899999999999875543   34444443   3599999999999976655543 36777888899999999999999


Q ss_pred             hHHHHHHHHHHcC
Q 028507          159 IKPLFRKIAAALP  171 (208)
Q Consensus       159 i~~~~~~l~~~~~  171 (208)
                      ++++|++|.+.+.
T Consensus       154 i~el~~~i~~~~~  166 (258)
T 3a1s_A          154 LEELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998764

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.94  E-value=4.5e-27  Score=180.94  Aligned_cols=155  Identities=18%  Similarity=0.191  Sum_probs=117.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCC---CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh---chhhhccCCcE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDN---TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS---LIPSYIRDSSV   84 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~   84 (208)
                      ||+++|.+|||||||++++.++.++.   ...+|.+.+...    ++ ..+++.||||+|+++|..   ....+++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999887654432   245666655543    22 237899999999999964   35788999999


Q ss_pred             EEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc-------cCCCHHHHHHHHHh----cCCeEEEe
Q 028507           85 AVVVYDVASR--QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK-------RQVSIEEGEAKSRE----LNVMFIET  151 (208)
Q Consensus        85 ~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~-------~~~~~~~~~~~~~~----~~~~~~~~  151 (208)
                      +|+|||++++  +....+..|+..+... .+++|+++++||+|+.++       +++..+++++++..    +++.+++|
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~-~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eT  154 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLT  154 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHH-CTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECC
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhc-CCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEe
Confidence            9999999987  3333333344444433 467999999999999764       34556666777775    67899999


Q ss_pred             ecCCCCChHHHHHHHHHHcCC
Q 028507          152 SAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       152 sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ||++ .++.++|..+++.+.+
T Consensus       155 SAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          155 SIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             CSSS-SHHHHHHHHHHTTSST
T ss_pred             ccCC-CcHHHHHHHHHHHHHh
Confidence            9998 5899999999987754

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=5.8e-27  Score=193.94  Aligned_cols=167  Identities=20%  Similarity=0.334  Sum_probs=127.6

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEE--------EECCEEEEEEEEEcCCchhhhhchh
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTM--------YLEDRTVRLQLWDTAGQERFRSLIP   76 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~i~D~~G~~~~~~~~~   76 (208)
                      ...+.+||+++|.+|||||||+++|.+..+.....++.+.+......        ..++..+.+.+||+||++.+..+..
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~  116 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ  116 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH
Confidence            34678999999999999999999999999887777887776654421        1123347899999999999999999


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      .+++.+|++|+|||+++.   +.+..|+..+.... ++.|+++|+||+|+.+.+.+..++.+..+...+++++++||++|
T Consensus       117 ~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g  192 (535)
T 3dpu_A          117 FFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNG  192 (535)
T ss_dssp             HHHHSSEEEEEEECGGGG---GGHHHHHHHHHHHS-SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC---
T ss_pred             HHccCCcEEEEEEeCCCc---hhHHHHHHHHHHhC-CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcc
Confidence            999999999999999764   56678888887665 46999999999999888888888889999999999999999999


Q ss_pred             CChHHHHHHHHHHcCCCcc
Q 028507          157 FNIKPLFRKIAAALPGMET  175 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~~~  175 (208)
                      .|++++|+.|.+.+.+...
T Consensus       193 ~gi~eL~~~l~~~~~~~~~  211 (535)
T 3dpu_A          193 DGVESIAKSLKSAVLHPDS  211 (535)
T ss_dssp             --CTTHHHHHHHHHTCTTS
T ss_pred             cCHHHHHHHHHHHHhcccc
Confidence            9999999999998876543

>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=99.93  E-value=1.1e-26  Score=177.12  Aligned_cols=158  Identities=18%  Similarity=0.190  Sum_probs=121.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh----------chh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS----------LIP   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~   76 (208)
                      |+.++|+++|.+|+|||||+|+|++..+.....++++.+.....+...+  ..+.+|||||+..+..          ...
T Consensus         1 M~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~   78 (274)
T 3i8s_A            1 MKKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIAC   78 (274)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHH
Confidence            4679999999999999999999998876556666776677666776666  4689999999887652          122


Q ss_pred             hh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecC
Q 028507           77 SY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK  154 (208)
Q Consensus        77 ~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  154 (208)
                      .+  ...+|++|+|+|+++.+....+..++.   ..   ++|+++|+||+|+.+.+... .....++..++++++++||+
T Consensus        79 ~~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~---~~---~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~  151 (274)
T 3i8s_A           79 HYILSGDADLLINVVDASNLERNLYLTLQLL---EL---GIPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVST  151 (274)
T ss_dssp             HHHHHTCCSEEEEEEEGGGHHHHHHHHHHHH---HH---TCCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCG
T ss_pred             HHHhhcCCCEEEEEecCCChHHHHHHHHHHH---hc---CCCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcC
Confidence            22  279999999999998665544443333   22   49999999999987654432 22456677789999999999


Q ss_pred             CCCChHHHHHHHHHHcCCC
Q 028507          155 AGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~~~~~  173 (208)
                      +|.|++++|++|.+.+...
T Consensus       152 ~g~gi~el~~~i~~~~~~~  170 (274)
T 3i8s_A          152 RGRGIEALKLAIDRYKANE  170 (274)
T ss_dssp             GGHHHHHHHHHHHTCCCCC
T ss_pred             CCCCHHHHHHHHHHHHhcC
Confidence            9999999999999887643

>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=99.93  E-value=2.4e-26  Score=173.44  Aligned_cols=151  Identities=15%  Similarity=0.201  Sum_probs=119.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh----------chhhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS----------LIPSYI   79 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~   79 (208)
                      .+|+++|++|+|||||+|+|++........++++.+.....+..++.  .+.+|||||...+..          +...++
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            48999999999999999999988766666677777777777777774  799999999877653          344556


Q ss_pred             --cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC
Q 028507           80 --RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF  157 (208)
Q Consensus        80 --~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  157 (208)
                        ..+|++|+|+|+++.++...+..++.      ..++|+++|+||+|+.+.+.... ....+...++++++++||++|.
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~l~------~~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~  152 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQLF------ELGKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNI  152 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHHHT------TSCSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTB
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHHHH------HcCCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCC
Confidence              89999999999998665554333322      23699999999999876554332 2345677789999999999999


Q ss_pred             ChHHHHHHHHHH
Q 028507          158 NIKPLFRKIAAA  169 (208)
Q Consensus       158 ~i~~~~~~l~~~  169 (208)
                      |++++|++|.+.
T Consensus       153 gi~el~~~i~~~  164 (256)
T 3iby_A          153 GIPALQQSLLHC  164 (256)
T ss_dssp             SHHHHHHHHHTC
T ss_pred             CHHHHHHHHHhh
Confidence            999999999887

>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=99.93  E-value=2.6e-26  Score=174.45  Aligned_cols=154  Identities=14%  Similarity=0.167  Sum_probs=117.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh------hchhhhcc--
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR------SLIPSYIR--   80 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--   80 (208)
                      .++|+++|++|+|||||+++|++........++.+.+....  .+.. ...+.+|||||+..+.      .+...++.  
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~~--~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~   79 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKSG--LVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQ   79 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCEEE--ECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEEEE--EEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcC
Confidence            58999999999999999999998765444455544443333  3343 4679999999988765      34455554  


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      .+|++|+|+|+++.+..   ..|...+..   .++|+++++||+|+.+.+.+. .....++..++++++++||++|.|++
T Consensus        80 ~~d~vi~V~D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~  152 (272)
T 3b1v_A           80 RADSILNVVDATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVD  152 (272)
T ss_dssp             CCSEEEEEEEGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHH
T ss_pred             CCCEEEEEecCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHH
Confidence            69999999999876543   345555543   359999999999987655544 35567788889999999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028507          161 PLFRKIAAALPG  172 (208)
Q Consensus       161 ~~~~~l~~~~~~  172 (208)
                      ++|+++.+.+..
T Consensus       153 el~~~i~~~~~~  164 (272)
T 3b1v_A          153 QVVKKAAHTTTS  164 (272)
T ss_dssp             HHHHHHHHSCTT
T ss_pred             HHHHHHHHHHhh
Confidence            999999987643

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.93  E-value=3.5e-25  Score=160.19  Aligned_cols=159  Identities=19%  Similarity=0.275  Sum_probs=111.7

Q ss_pred             CCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCC----------chhhhh
Q 028507            4 VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG----------QERFRS   73 (208)
Q Consensus         4 ~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~   73 (208)
                      .+....++|+|+|++|+|||||+++|++..+. ...++.+.+........+.   .+.+|||||          .+.+..
T Consensus        18 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~   93 (195)
T 3pqc_A           18 YPPPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKR   93 (195)
T ss_dssp             CCCCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHH
Confidence            33456789999999999999999999988742 2233333333333333332   478999999          566666


Q ss_pred             chhhhccCC---cEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--CCHHHHHHHHHhcC-
Q 028507           74 LIPSYIRDS---SVAVVVYDVASRQSFL--NTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEEGEAKSRELN-  145 (208)
Q Consensus        74 ~~~~~~~~~---d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~~~~~~~~~~-  145 (208)
                      ++..+++.+   |++++|+|+++..+..  .+..|+...      ++|+++|+||+|+.++..  ...++...++...+ 
T Consensus        94 ~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  167 (195)
T 3pqc_A           94 LVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGE  167 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCC
T ss_pred             HHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCC
Confidence            666666655   9999999998653322  233333322      599999999999975432  23344555555534 


Q ss_pred             CeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          146 VMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       146 ~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ++++++||+++.|++++|++|.+.+.+
T Consensus       168 ~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          168 YTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            699999999999999999999988754

>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=99.93  E-value=1.8e-25  Score=170.16  Aligned_cols=159  Identities=23%  Similarity=0.239  Sum_probs=124.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh------chhhhc-
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS------LIPSYI-   79 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~-   79 (208)
                      |+.++|+++|++|+|||||+++|++..+.....++.+.+.....+.+.+  ..+.+||+||+..+..      ....++ 
T Consensus         1 m~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~   78 (271)
T 3k53_A            1 MVLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE--KEFLVVDLPGIYSLTAHSIDELIARNFIL   78 (271)
T ss_dssp             CCCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT--EEEEEEECCCCSCCCSSCHHHHHHHHHHH
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC--ceEEEEeCCCccccccCCHHHHHHHHhhh
Confidence            4679999999999999999999998877656667777777777777777  4599999999887655      344444 


Q ss_pred             -cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           80 -RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        80 -~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                       ..+|++|+|+|+++.+   ....++..+...  ..+|+++|+||+|+.+.+..... ...+...++++++++|+++|.|
T Consensus        79 ~~~~d~vi~v~D~~~~~---~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~~~~~~-~~~l~~~lg~~~~~~Sa~~g~g  152 (271)
T 3k53_A           79 DGNADVIVDIVDSTCLM---RNLFLTLELFEM--EVKNIILVLNKFDLLKKKGAKID-IKKMRKELGVPVIPTNAKKGEG  152 (271)
T ss_dssp             TTCCSEEEEEEEGGGHH---HHHHHHHHHHHT--TCCSEEEEEECHHHHHHHTCCCC-HHHHHHHHSSCEEECBGGGTBT
T ss_pred             ccCCcEEEEEecCCcch---hhHHHHHHHHhc--CCCCEEEEEEChhcCcccccHHH-HHHHHHHcCCcEEEEEeCCCCC
Confidence             6899999999998753   233334444332  22899999999998765444332 5667778899999999999999


Q ss_pred             hHHHHHHHHHHcCCC
Q 028507          159 IKPLFRKIAAALPGM  173 (208)
Q Consensus       159 i~~~~~~l~~~~~~~  173 (208)
                      +.++|+.+...+...
T Consensus       153 i~~l~~~i~~~~~~~  167 (271)
T 3k53_A          153 VEELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999987543

>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=99.92  E-value=3.7e-26  Score=168.53  Aligned_cols=148  Identities=17%  Similarity=0.226  Sum_probs=107.4

Q ss_pred             CCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCC---CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhh
Q 028507            2 APVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDN---TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY   78 (208)
Q Consensus         2 ~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   78 (208)
                      ......+.++|+|+|++|+|||||+++|.+..+..   .+.++.+.++         ..+.+.+||+||++.+...+..+
T Consensus         5 ~~~~~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~   75 (218)
T 1nrj_B            5 GIKQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDY   75 (218)
T ss_dssp             -----CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHH
T ss_pred             CCCccCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHH
Confidence            33445678999999999999999999999887654   2334433222         23569999999999998888888


Q ss_pred             ccC----CcEEEEEEeCC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEeCCCCCcccCCC------HHHHHHHHHh
Q 028507           79 IRD----SSVAVVVYDVA-SRQSFLNTSKWIDEVRTE----RGSDVIIVLVGNKTDLVEKRQVS------IEEGEAKSRE  143 (208)
Q Consensus        79 ~~~----~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~piivv~nK~D~~~~~~~~------~~~~~~~~~~  143 (208)
                      +..    +|++|+|||++ +++++..+..|+..+...    ...++|+++|+||+|+.+...+.      ..+...++..
T Consensus        76 ~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~  155 (218)
T 1nrj_B           76 LKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIER  155 (218)
T ss_dssp             HHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHH
Confidence            776    89999999999 888899888888887654    34679999999999997765543      4455666667


Q ss_pred             cCCeEEEeecCCCCC
Q 028507          144 LNVMFIETSAKAGFN  158 (208)
Q Consensus       144 ~~~~~~~~sa~~~~~  158 (208)
                      .++.++++|++++.+
T Consensus       156 ~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          156 RKKSLNEVERKINEE  170 (218)
T ss_dssp             HHHHHHC--------
T ss_pred             Hhccccccccccccc
Confidence            778899999999875

>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=99.92  E-value=1.7e-24  Score=166.86  Aligned_cols=163  Identities=18%  Similarity=0.158  Sum_probs=114.3

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchh--------h
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER--------F   71 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~   71 (208)
                      |+++  .+..+|+|+|.+|+|||||+|+|++.++.. ...+.++...........+  ..+.||||||...        +
T Consensus         1 m~~~--~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~--~~l~l~DTpG~~~~~~~l~~~~   76 (301)
T 1wf3_A            1 MAEK--TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFM   76 (301)
T ss_dssp             --CC--CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHH
T ss_pred             CCCC--ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCC--cEEEEecCccccchhhHHHHHH
Confidence            5554  567899999999999999999999988743 3334343343333344444  6799999999765        4


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-cC-CeE
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWI-DEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-LN-VMF  148 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-~~-~~~  148 (208)
                      ......+++.+|++++|+|++++.+..  ..|+ ..+... ..++|+++|+||+|+.+....    ....+.. .+ .++
T Consensus        77 ~~~~~~~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~-~~~~p~ilV~NK~Dl~~~~~~----~~~~~~~~~~~~~~  149 (301)
T 1wf3_A           77 DQEVYEALADVNAVVWVVDLRHPPTPE--DELVARALKPL-VGKVPILLVGNKLDAAKYPEE----AMKAYHELLPEAEP  149 (301)
T ss_dssp             HHHHHHHTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGG-TTTSCEEEEEECGGGCSSHHH----HHHHHHHTSTTSEE
T ss_pred             HHHHHHHHhcCCEEEEEEECCCCCChH--HHHHHHHHHhh-cCCCCEEEEEECcccCCchHH----HHHHHHHhcCcCcE
Confidence            445566789999999999998764433  3444 344333 246999999999998654320    1222222 23 479


Q ss_pred             EEeecCCCCChHHHHHHHHHHcCCCc
Q 028507          149 IETSAKAGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~~~~~  174 (208)
                      +++||++|.|++++|++|...+++..
T Consensus       150 ~~iSA~~g~gv~~l~~~l~~~l~~~~  175 (301)
T 1wf3_A          150 RMLSALDERQVAELKADLLALMPEGP  175 (301)
T ss_dssp             EECCTTCHHHHHHHHHHHHTTCCBCC
T ss_pred             EEEeCCCCCCHHHHHHHHHHhcccCC
Confidence            99999999999999999999876543

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.92  E-value=2.8e-25  Score=164.32  Aligned_cols=163  Identities=13%  Similarity=0.101  Sum_probs=108.5

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcC--CCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCc----------hhh
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKF--DNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQ----------ERF   71 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~----------~~~   71 (208)
                      +....++|+|+|.+|+|||||+++|++...  .....+.++...  ...... .....+.||||||.          +.+
T Consensus        25 ~~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~  102 (223)
T 4dhe_A           25 PPTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHI--NYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHW  102 (223)
T ss_dssp             CCCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCE--EEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHH
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccce--EEEEecCCCCCcEEEEcCCCCCcccCChhhHHHH
Confidence            345678999999999999999999998863  222233332222  222332 22357999999994          344


Q ss_pred             hhchhhhccC---CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHHHHh---
Q 028507           72 RSLIPSYIRD---SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAKSRE---  143 (208)
Q Consensus        72 ~~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~~~~---  143 (208)
                      ......++..   +|++|+|+|++++.+. ....++..+..   .++|+++|+||+|+.+.....  ..+.......   
T Consensus       103 ~~~~~~~~~~~~~~d~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~  178 (223)
T 4dhe_A          103 EQLLSSYLQTRPQLCGMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRD  178 (223)
T ss_dssp             HHHHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcCcCEEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhh
Confidence            5555555554   8889999999864332 22333444433   458999999999987644321  1222222332   


Q ss_pred             ----cCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          144 ----LNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       144 ----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                          .+.+++++||+++.|++++|++|.+.+...
T Consensus       179 ~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          179 AGYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             HTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             cccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence                456899999999999999999999988654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.92  E-value=8.7e-26  Score=182.57  Aligned_cols=173  Identities=21%  Similarity=0.177  Sum_probs=122.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCc----------hhhhhch
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ----------ERFRSLI   75 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~   75 (208)
                      ...++|+++|.+|+|||||+|+|++..+. ....++++.+.....+..++.  .+.||||||+          +.|..+.
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHH
Confidence            35699999999999999999999987753 344455566666666777774  5999999998          4444333


Q ss_pred             h-hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcCCeEE
Q 028507           76 P-SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELNVMFI  149 (208)
Q Consensus        76 ~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~  149 (208)
                      . .+++.+|++++|+|++++.++... .|+..+..   .++|+++|+||+|+.+.+.....+.....     ...+++++
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~  326 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  326 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEE
Confidence            2 467899999999999987776664 45555543   45999999999999876654443332222     22367999


Q ss_pred             EeecCCCCChHHHHHHHHHHcCCCcccccccccccc
Q 028507          150 ETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMV  185 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~  185 (208)
                      ++||++|.|++++|+.+.+.+.+...+.++......
T Consensus       327 ~~SA~tg~~v~~l~~~i~~~~~~~~~~~~t~~ln~~  362 (436)
T 2hjg_A          327 FMSALTKKRIHTLMPAIIKASENHSLRVQTNVLNDV  362 (436)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHHHTCCCCHHHHHHH
T ss_pred             EEecccCCCHHHHHHHHHHHHHHhhcCCCHHHHHHH
Confidence            999999999999999999988766555554444333

>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=99.91  E-value=5.1e-25  Score=179.00  Aligned_cols=172  Identities=21%  Similarity=0.210  Sum_probs=124.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCc-CCCCCCCccceeeEEEEEEECCEEEEEEEEEcCC----------chhhhhch
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDK-FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG----------QERFRSLI   75 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~   75 (208)
                      ...++|+++|.+|+|||||+++|++.. ......++++.+.....+..++.  .+.||||||          ++.+....
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  270 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  270 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHH
Confidence            457999999999999999999999765 33344555555655566667774  699999999          56665554


Q ss_pred             h-hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-----CCeEE
Q 028507           76 P-SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-----NVMFI  149 (208)
Q Consensus        76 ~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~  149 (208)
                      . .+++.+|++|+|+|+++... +....|...+..   .++|+++|+||+|+.+.+....++....+...     +++++
T Consensus       271 ~~~~~~~ad~~llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  346 (456)
T 4dcu_A          271 ALKAIDRSEVVAVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  346 (456)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhhCCEEEEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEE
Confidence            4 36789999999999986433 222334444433   45999999999999877776667766666654     57999


Q ss_pred             EeecCCCCChHHHHHHHHHHcCCCccccccccccc
Q 028507          150 ETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEM  184 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~  184 (208)
                      ++||++|.|++++|+++.+.+.+.....++.....
T Consensus       347 ~~SA~~g~gv~~l~~~i~~~~~~~~~~~~t~~ln~  381 (456)
T 4dcu_A          347 FMSALTKKRIHTLMPAIIKASENHSLRVQTNVLND  381 (456)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHHHTCCCCHHHHHH
T ss_pred             EEcCCCCcCHHHHHHHHHHHHHHhcccCCHHHHHH
Confidence            99999999999999999998876665555444433

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.91  E-value=1.1e-24  Score=174.28  Aligned_cols=160  Identities=20%  Similarity=0.208  Sum_probs=117.4

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhc-------hh
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL-------IP   76 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~   76 (208)
                      .....++|+|+|..|+|||||+++|++..+. ....+.++.+.....+.+.+. ..+.+|||||+..+..+       ..
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~~~~~~  108 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLRVEKAR  108 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCCHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHHHHHHH
Confidence            3456799999999999999999999988763 344555556666666666654 27999999999877554       34


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      .++..+|++|+|+|++..   .....|+..+...   ++|+++|+||+|+.+....  +....++..++++++++||++|
T Consensus       109 ~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAktg  180 (423)
T 3qq5_A          109 RVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSALQK  180 (423)
T ss_dssp             HHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSCCT
T ss_pred             HHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECCCC
Confidence            468899999999999433   2335566666554   5999999999999776654  5556667778899999999999


Q ss_pred             CChHHHHHHHHHHcCCC
Q 028507          157 FNIKPLFRKIAAALPGM  173 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~  173 (208)
                      .|++++|++|.+.+.+.
T Consensus       181 ~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          181 KGFDDIGKTISEILPGD  197 (423)
T ss_dssp             TSTTTHHHHHHHHSCCC
T ss_pred             CCHHHHHHHHHHhhhhh
Confidence            99999999999999654

>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=99.91  E-value=5.1e-24  Score=173.06  Aligned_cols=156  Identities=15%  Similarity=0.144  Sum_probs=99.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhch--------hhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI--------PSYI   79 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~   79 (208)
                      .++|+|+|.+|+|||||+|+|++... .....++++.+.....+.+++  +.+.+|||||+..+...+        ..++
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~~  310 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMKM  310 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhhc
Confidence            58899999999999999999998753 344556666677667777777  579999999987765433        3367


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      ..+|++|+|+|++++.++..+..+...+....  ++|+++|+||+|+.+....   ..+.+......+++++||++|.|+
T Consensus       311 ~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~GI  385 (476)
T 3gee_A          311 AEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGDGI  385 (476)
T ss_dssp             SSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTBSH
T ss_pred             ccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCCCH
Confidence            89999999999998877654333333332222  6999999999999765433   223333332368999999999999


Q ss_pred             HHHHHHHHHHcC
Q 028507          160 KPLFRKIAAALP  171 (208)
Q Consensus       160 ~~~~~~l~~~~~  171 (208)
                      +++|++|.+.+.
T Consensus       386 ~eL~~~i~~~~~  397 (476)
T 3gee_A          386 DTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999999886

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.91  E-value=8.3e-24  Score=166.92  Aligned_cols=162  Identities=19%  Similarity=0.180  Sum_probs=121.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh---------hchhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR---------SLIPS   77 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~   77 (208)
                      ...++|+++|.+|+|||||+++|.+..+.....+..+.......+...+  ..+.+|||||.....         .....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  242 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGY--FRYQIIDTPGLLDRPISERNEIEKQAILA  242 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEETT--EEEEEEECTTTSSSCSTTSCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEecC--ceEEEEeCCCccccchhhhhHHHHHHHHH
Confidence            4568999999999999999999998775333333333344444444444  579999999975421         11223


Q ss_pred             hccCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCC
Q 028507           78 YIRDSSVAVVVYDVASRQ--SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKA  155 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  155 (208)
                      +...+|++++|+|++++.  +++....|+..+..... +.|+++|+||+|+.+...+  .+...++...+++++++||++
T Consensus       243 ~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSA~~  319 (357)
T 2e87_A          243 LRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALK  319 (357)
T ss_dssp             GGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHHH--HHHHHHHHHTTCCCEECBTTT
T ss_pred             HHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHHH--HHHHHHHHhcCCCeEEEeCCC
Confidence            445799999999998876  67778888888877653 6999999999999765432  445566667788999999999


Q ss_pred             CCChHHHHHHHHHHcCCC
Q 028507          156 GFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~~~  173 (208)
                      |+|++++|++|.+.+.+.
T Consensus       320 g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          320 GTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHH
Confidence            999999999999988544

>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=99.91  E-value=6.3e-24  Score=165.87  Aligned_cols=160  Identities=19%  Similarity=0.149  Sum_probs=120.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh----hhhchhhh---ccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER----FRSLIPSY---IRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~---~~~~d   83 (208)
                      +|+|+|.+|+|||||+++|++.+......+.++.+.....+.+++. ..+.+||+||+..    +..+...+   +..++
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~-~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d  238 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR  238 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC-ceEEEecCCCCcccccccchhHHHHHHHHHhcc
Confidence            6889999999999999999987654333343444444444555542 4699999999653    22233333   45699


Q ss_pred             EEEEEEeCCC---hhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC--CeEEEeecCCC
Q 028507           84 VAVVVYDVAS---RQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN--VMFIETSAKAG  156 (208)
Q Consensus        84 ~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~  156 (208)
                      ++|+|+|+++   +++++.+..|+.++..+..  .++|+++|+||+|+.+..    +..+.+...+.  .+++++||+++
T Consensus       239 ~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~tg  314 (342)
T 1lnz_A          239 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTR  314 (342)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCS
T ss_pred             EEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCCC
Confidence            9999999998   7889999999999987642  469999999999986532    34455566665  68999999999


Q ss_pred             CChHHHHHHHHHHcCCCcc
Q 028507          157 FNIKPLFRKIAAALPGMET  175 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~~~  175 (208)
                      .|+++++++|.+.+.+...
T Consensus       315 ~gi~eL~~~l~~~l~~~~~  333 (342)
T 1lnz_A          315 EGLRELLFEVANQLENTPE  333 (342)
T ss_dssp             STTHHHHHHHHHHHTSCCC
T ss_pred             cCHHHHHHHHHHHHhhCcc
Confidence            9999999999999876543

>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=99.90  E-value=3.4e-22  Score=160.31  Aligned_cols=165  Identities=21%  Similarity=0.216  Sum_probs=107.1

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhcCc---CCCCCCC--ccceeeEEEEEEE-------------C--C----EEE
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMYDK---FDNTYQA--TIGIDFLSKTMYL-------------E--D----RTV   58 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~~~---~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~   58 (208)
                      |....+.++|+++|+.++|||||+++|.+..   +..+..+  |....+....+..             +  +    ...
T Consensus         2 p~~r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~   81 (408)
T 1s0u_A            2 PLGSQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLR   81 (408)
T ss_dssp             ---CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEE
T ss_pred             CcccCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCccccccc
Confidence            3444567999999999999999999998543   3333334  3322333222211             1  1    136


Q ss_pred             EEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCC----hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--C
Q 028507           59 RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVAS----RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--V  132 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~  132 (208)
                      .+.||||||+++|...+...+..+|++|+|+|+++    +++.+.+.    .+.. .+ ..|+++++||+|+.+...  .
T Consensus        82 ~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~-l~-~~~iivv~NK~Dl~~~~~~~~  155 (408)
T 1s0u_A           82 RVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEI-LG-IDKIIIVQNKIDLVDEKQAEE  155 (408)
T ss_dssp             EEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHH-TT-CCCEEEEEECTTSSCTTTTTT
T ss_pred             EEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHH-cC-CCeEEEEEEccCCCCHHHHHH
Confidence            89999999999998888888889999999999995    33443332    2222 22 257999999999976543  2


Q ss_pred             CHHHHHHHHHh---cCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          133 SIEEGEAKSRE---LNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       133 ~~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ..+++..++..   .+++++++||++|.|+++++++|.+.++..
T Consensus       156 ~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~~  199 (408)
T 1s0u_A          156 NYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPTP  199 (408)
T ss_dssp             HHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCCC
Confidence            34556666654   357899999999999999999999987643

>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=99.89  E-value=6e-23  Score=166.91  Aligned_cols=152  Identities=21%  Similarity=0.279  Sum_probs=116.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch-hhhh--------chhhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE-RFRS--------LIPSY   78 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~~--------~~~~~   78 (208)
                      .++|+|+|.+|+|||||+|+|++..+ .....++++.+.....+.+++  ..+.+|||||.. .+..        ....+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            38999999999999999999998764 345556666777777777777  569999999987 5432        23456


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCC
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFN  158 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  158 (208)
                      +..+|++|+|+|++++.+++... ++..+     .++|+++|+||+|+.+.  ....+...++. .+++++++||+++.|
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~~~~~~~-~~~~~i~iSAktg~G  391 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEEIKNKLG-TDRHMVKISALKGEG  391 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHHT-CSTTEEEEEGGGTCC
T ss_pred             hhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHhc-CCCcEEEEECCCCCC
Confidence            78999999999999887765532 22222     35899999999999653  34444444432 346899999999999


Q ss_pred             hHHHHHHHHHHcC
Q 028507          159 IKPLFRKIAAALP  171 (208)
Q Consensus       159 i~~~~~~l~~~~~  171 (208)
                      ++++|++|.+.+.
T Consensus       392 i~eL~~~l~~~~~  404 (482)
T 1xzp_A          392 LEKLEESIYRETQ  404 (482)
T ss_dssp             HHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999765

>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=99.89  E-value=9.1e-23  Score=166.41  Aligned_cols=157  Identities=21%  Similarity=0.211  Sum_probs=112.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCc-------CCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDK-------FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY   78 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   78 (208)
                      .|+.++|+++|+.++|||||+++|++..       ...+..+..+++.....+.+++  ..+.||||||+++|...+...
T Consensus        16 ~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~   93 (482)
T 1wb1_A           16 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSA   93 (482)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHH
Confidence            4678999999999999999999999766       2333444444444444455555  679999999999998888888


Q ss_pred             ccCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--CCHHHHHHHHHhc----CCeEE
Q 028507           79 IRDSSVAVVVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEEGEAKSREL----NVMFI  149 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~~~~~~~~~----~~~~~  149 (208)
                      +..+|++|+|+|+++   +++.+.+.    .+. .  .++|+++++||+|+.++..  ...++...++...    +++++
T Consensus        94 ~~~aD~~ilVvda~~g~~~qt~e~l~----~~~-~--~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii  166 (482)
T 1wb1_A           94 ADIIDLALIVVDAKEGPKTQTGEHML----ILD-H--FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSII  166 (482)
T ss_dssp             TTSCCEEEEEEETTTCSCHHHHHHHH----HHH-H--TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEE
T ss_pred             HhhCCEEEEEEecCCCccHHHHHHHH----HHH-H--cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEE
Confidence            999999999999987   44443332    222 2  2488899999999975322  1233444555544    56899


Q ss_pred             EeecCCCCChHHHHHHHHHHcC
Q 028507          150 ETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ++||++|.|+.+++++|.+.++
T Consensus       167 ~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          167 PISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEECcCCCCHHHHHHHHHHhhc
Confidence            9999999999999999998764

>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=99.89  E-value=7.1e-22  Score=158.21  Aligned_cols=167  Identities=17%  Similarity=0.119  Sum_probs=116.7

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCcc-ce--------------eeEEEEEEE---CCEEEEEEEEEcC
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATI-GI--------------DFLSKTMYL---EDRTVRLQLWDTA   66 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~-~~--------------~~~~~~~~~---~~~~~~~~i~D~~   66 (208)
                      ...+.++|+++|++|+|||||+++|++........... ..              +........   ......+.|||||
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtP   83 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAP   83 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECC
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCcccccccCccccceeeccccccccceecccccccccccccccccceEEEEECC
Confidence            34678999999999999999999998754322110000 00              000000000   1123689999999


Q ss_pred             CchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--CHHHHHHHHHhc
Q 028507           67 GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--SIEEGEAKSREL  144 (208)
Q Consensus        67 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~~~~~~~~~~~~  144 (208)
                      |++.|...+...+..+|++|+|+|+++..++....+++..+....  ..|+++++||+|+.+....  ..++...+....
T Consensus        84 Gh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~  161 (403)
T 3sjy_A           84 GHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGT  161 (403)
T ss_dssp             CCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTS
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999998765666667766555443  2589999999999764321  122333333322


Q ss_pred             ---CCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          145 ---NVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       145 ---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                         +++++++||++|.|+.+++++|.+.++..
T Consensus       162 ~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~~  193 (403)
T 3sjy_A          162 WAENVPIIPVSALHKINIDSLIEGIEEYIKTP  193 (403)
T ss_dssp             TTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             CCCCCEEEEEECCCCcChHHHHHHHHHhCCCC
Confidence               56899999999999999999999988644

>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=99.89  E-value=1.6e-22  Score=163.58  Aligned_cols=153  Identities=19%  Similarity=0.239  Sum_probs=104.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh---------hhhchhhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER---------FRSLIPSYI   79 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~   79 (208)
                      .+|+|+|.+|||||||+|+|++.+.. ....++++.+.....+.+.+.  .+.+|||||...         +......++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHH
Confidence            47999999999999999999988753 345566666777777778774  589999999664         234556678


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHH-HHHHHhcCC-eEEEeecCCCC
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEG-EAKSRELNV-MFIETSAKAGF  157 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~-~~~~~~~~~-~~~~~sa~~~~  157 (208)
                      +.+|++|+|+|+++..+...  .++..+...  .++|+++|+||+|+.+..   ..+. ..+. .+++ .++++||++|.
T Consensus        80 ~~ad~il~V~D~~~~~~~~d--~~i~~~l~~--~~~p~ilv~NK~D~~~~~---~~~~~~~~~-~lg~~~~~~iSA~~g~  151 (439)
T 1mky_A           80 READLVLFVVDGKRGITKED--ESLADFLRK--STVDTILVANKAENLREF---EREVKPELY-SLGFGEPIPVSAEHNI  151 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHH--HHHHHHHHH--HTCCEEEEEESCCSHHHH---HHHTHHHHG-GGSSCSCEECBTTTTB
T ss_pred             HhCCEEEEEEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEeCCCCcccc---HHHHHHHHH-hcCCCCEEEEeccCCC
Confidence            99999999999986543322  222222222  248999999999985321   1222 3333 5576 78999999999


Q ss_pred             ChHHHHHHHHHHcCC
Q 028507          158 NIKPLFRKIAAALPG  172 (208)
Q Consensus       158 ~i~~~~~~l~~~~~~  172 (208)
                      |+.+++++|...+++
T Consensus       152 gv~~L~~~i~~~l~~  166 (439)
T 1mky_A          152 NLDTMLETIIKKLEE  166 (439)
T ss_dssp             SHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhccc
Confidence            999999999988864

>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=99.88  E-value=1.4e-21  Score=146.04  Aligned_cols=162  Identities=14%  Similarity=0.118  Sum_probs=108.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCC--ccceeeEEEEEEECCEEEEEEEEEcCCch-----------hhhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA--TIGIDFLSKTMYLEDRTVRLQLWDTAGQE-----------RFRS   73 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----------~~~~   73 (208)
                      ...++|+|+|.+|+|||||+++|++..+.....+  +.+.........+++  ..+.||||||..           .+..
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~~~~  104 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKEIIR  104 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHHHHH
Confidence            4679999999999999999999999887655544  444555555666666  469999999943           3444


Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCC------HHHHHHHHHhcC
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVS------IEEGEAKSRELN  145 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~------~~~~~~~~~~~~  145 (208)
                      .+...++++|++|+|+|+++....  ...++..+....+  ...|+++|+||+|+.+...+.      ....+.++...+
T Consensus       105 ~~~~~~~~~~~~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~~  182 (239)
T 3lxx_A          105 CILLTSPGPHALLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFG  182 (239)
T ss_dssp             HHHHTTTCCSEEEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------CHHHHHHHHHHS
T ss_pred             HHHhcCCCCcEEEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHcC
Confidence            455556789999999998754331  1223333322211  236899999999987654433      235667777788


Q ss_pred             CeEEEeecCCC-----CChHHHHHHHHHHcCC
Q 028507          146 VMFIETSAKAG-----FNIKPLFRKIAAALPG  172 (208)
Q Consensus       146 ~~~~~~sa~~~-----~~i~~~~~~l~~~~~~  172 (208)
                      ..++.++...+     .++.++|+.+..++.+
T Consensus       183 ~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          183 DRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             SSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            88888877644     6889999988888754

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.88  E-value=3.5e-22  Score=161.37  Aligned_cols=157  Identities=17%  Similarity=0.199  Sum_probs=105.5

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCc-------------------------------CCCCCCCccceeeEEEEEEEC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDK-------------------------------FDNTYQATIGIDFLSKTMYLE   54 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~   54 (208)
                      ....++|+++|++++|||||+++|++..                               ...+..+..+++.....+..+
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~   93 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE   93 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC
Confidence            3467999999999999999999996431                               111222444555555555555


Q ss_pred             CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhh---HHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCccc
Q 028507           55 DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQS---FLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKR  130 (208)
Q Consensus        55 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~  130 (208)
                      +  ..+.||||||+++|...+...+..+|++|+|+|+++...   ++....+...+......++| +++++||+|+....
T Consensus        94 ~--~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~~~  171 (439)
T 3j2k_7           94 K--KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVN  171 (439)
T ss_pred             C--eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcccc
Confidence            4  579999999999999988889999999999999987421   11001111111111223477 89999999985321


Q ss_pred             ------CCCHHHHHHHHHhcC------CeEEEeecCCCCChHHHHH
Q 028507          131 ------QVSIEEGEAKSRELN------VMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus       131 ------~~~~~~~~~~~~~~~------~~~~~~sa~~~~~i~~~~~  164 (208)
                            .....+...++..++      ++++++||++|.|+.++++
T Consensus       172 ~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          172 WSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence                  111233344444444      4799999999999998554

>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=99.88  E-value=9.1e-22  Score=151.72  Aligned_cols=161  Identities=16%  Similarity=0.207  Sum_probs=112.4

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCch-h--------hhhch
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE-R--------FRSLI   75 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~--------~~~~~   75 (208)
                      ..+..+|+|+|++|+|||||+|+|++.++. ....+.++.......+..++  ..+.+|||||+. .        +....
T Consensus         5 ~~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~--~~i~~iDTpG~~~~~~~~l~~~~~~~~   82 (301)
T 1ega_A            5 KSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAA   82 (301)
T ss_dssp             CCEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCT
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECC--eeEEEEECcCCCccchhhHHHHHHHHH
Confidence            355678999999999999999999988753 22223233333333344444  579999999987 2        33344


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecC
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAK  154 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~  154 (208)
                      ..++..+|++++|+|+++   +.....++....  ...+.|+++++||+|+.............+...+++ .++++||+
T Consensus        83 ~~~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l--~~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~  157 (301)
T 1ega_A           83 SSSIGDVELVIFVVEGTR---WTPDDEMVLNKL--REGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAE  157 (301)
T ss_dssp             TSCCCCEEEEEEEEETTC---CCHHHHHHHHHH--HSSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTT
T ss_pred             HHHHhcCCEEEEEEeCCC---CCHHHHHHHHHH--HhcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECC
Confidence            567889999999999976   223333333222  224599999999999865222223444555555676 79999999


Q ss_pred             CCCChHHHHHHHHHHcCCC
Q 028507          155 AGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~~~~~  173 (208)
                      ++.++.++++.+...+++.
T Consensus       158 ~g~~v~~l~~~i~~~l~~~  176 (301)
T 1ega_A          158 TGLNVDTIAAIVRKHLPEA  176 (301)
T ss_dssp             TTTTHHHHHHHHHTTCCBC
T ss_pred             CCCCHHHHHHHHHHhCCcC
Confidence            9999999999999987654

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.88  E-value=5.8e-22  Score=164.63  Aligned_cols=160  Identities=18%  Similarity=0.228  Sum_probs=112.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc--CCC-------------CCCCccceeeEEEEEEE---CCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK--FDN-------------TYQATIGIDFLSKTMYL---EDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~   69 (208)
                      +-.+|+|+|+.++|||||+++|+...  +..             +.....++......+.+   ++..+.++||||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            34799999999999999999998532  110             01111222222223333   4556899999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC---
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV---  146 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~---  146 (208)
                      +|...+...+..+|++|+|+|+++..+......|+....    .++|+++++||+|+....  .......+...+++   
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~  156 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDAT  156 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCT
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcc
Confidence            999999999999999999999998666666666665543    358999999999996543  12334455555666   


Q ss_pred             eEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          147 MFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       147 ~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      .++++||++|.|+++++++|.+.++..
T Consensus       157 ~vi~vSAktg~GI~~Ll~~I~~~lp~p  183 (599)
T 3cb4_D          157 DAVRCSAKTGVGVQDVLERLVRDIPPP  183 (599)
T ss_dssp             TCEEECTTTCTTHHHHHHHHHHHSCCC
T ss_pred             eEEEeecccCCCchhHHHHHhhcCCCc
Confidence            489999999999999999999998754

>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=99.88  E-value=1.2e-21  Score=157.28  Aligned_cols=161  Identities=20%  Similarity=0.202  Sum_probs=112.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCc---CCCCCCCccce--eeEEEEEEE-------------C--C----EEEEEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDK---FDNTYQATIGI--DFLSKTMYL-------------E--D----RTVRLQL   62 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~---~~~~~~~~~~~--~~~~~~~~~-------------~--~----~~~~~~i   62 (208)
                      .+.++|+++|+.++|||||+++|++..   +..+..+..++  .+....+..             +  +    ....+.|
T Consensus         8 ~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   87 (410)
T 1kk1_A            8 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   87 (410)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEE
Confidence            456999999999999999999998543   33333343333  232222211             1  1    1368999


Q ss_pred             EEcCCchhhhhchhhhccCCcEEEEEEeCCC----hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--CCHHH
Q 028507           63 WDTAGQERFRSLIPSYIRDSSVAVVVYDVAS----RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEE  136 (208)
Q Consensus        63 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~  136 (208)
                      |||||+++|.......+..+|++|+|+|+++    +++.+.+.    .+... + ..|+++++||+|+.+...  ...++
T Consensus        88 iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~~-~-~~~iivviNK~Dl~~~~~~~~~~~~  161 (410)
T 1kk1_A           88 IDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLM----ALQII-G-QKNIIIAQNKIELVDKEKALENYRQ  161 (410)
T ss_dssp             EECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHH----HHHHH-T-CCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             EECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHH----HHHHc-C-CCcEEEEEECccCCCHHHHHHHHHH
Confidence            9999999998888888889999999999985    33444332    22222 1 257899999999976432  12334


Q ss_pred             HHHHHHh---cCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          137 GEAKSRE---LNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       137 ~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      +..++..   .+++++++||++|.|+++++++|.+.++..
T Consensus       162 i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~p  201 (410)
T 1kk1_A          162 IKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIPTP  201 (410)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             HHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCCC
Confidence            4455443   357999999999999999999999987643

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.88  E-value=1e-22  Score=164.60  Aligned_cols=154  Identities=17%  Similarity=0.191  Sum_probs=101.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCch--------hhhhchhhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE--------RFRSLIPSYI   79 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~   79 (208)
                      ..+|+|+|.+|||||||+|+|++..+. ....+..+.+.......+.+  ..+.+|||||+.        .+......++
T Consensus         3 ~~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   80 (436)
T 2hjg_A            3 KPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN--YDFNLIDTGGIDIGDEPFLAQIRQQAEIAM   80 (436)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCS--SCCEEEC---------CHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECC--ceEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            479999999999999999999987764 23334444444444444444  569999999985        5666677788


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCC
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFN  158 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~  158 (208)
                      ..+|++|+|+|++++.+...  .++..+..  ..++|+++|+||+|+.+....    ...+. .+++ .++++||++|.|
T Consensus        81 ~~ad~il~vvD~~~~~~~~d--~~~~~~l~--~~~~pvilv~NK~D~~~~~~~----~~~~~-~lg~~~~~~iSA~~g~g  151 (436)
T 2hjg_A           81 DEADVIIFMVNGREGVTAAD--EEVAKILY--RTKKPVVLAVNKLDNTEMRAN----IYDFY-SLGFGEPYPISGTHGLG  151 (436)
T ss_dssp             HHCSEEEEEEETTTCSCHHH--HHHHHHHT--TCCSCEEEEEECCCC-----C----CCSSG-GGSSCCCEECBTTTTBT
T ss_pred             HhCCEEEEEEeCCCCCCHHH--HHHHHHHH--HcCCCEEEEEECccCccchhh----HHHHH-HcCCCCeEEEeCcCCCC
Confidence            99999999999987655433  33333322  246999999999998653211    11122 3455 789999999999


Q ss_pred             hHHHHHHHHHHcCCC
Q 028507          159 IKPLFRKIAAALPGM  173 (208)
Q Consensus       159 i~~~~~~l~~~~~~~  173 (208)
                      +.++++++.+.+++.
T Consensus       152 v~~L~~~i~~~l~~~  166 (436)
T 2hjg_A          152 LGDLLDAVAEHFKNI  166 (436)
T ss_dssp             HHHHHHHHHHTGGGC
T ss_pred             hHHHHHHHHHhcCcc
Confidence            999999999988643

>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=99.88  E-value=9.9e-23  Score=164.93  Aligned_cols=153  Identities=21%  Similarity=0.244  Sum_probs=105.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchh--------hhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIP--------SYI   79 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~--------~~~   79 (208)
                      .++|+|+|.+|+|||||+|+|++..+. ....++++.+.....+.+++  ..+.+|||||+..+...+.        .++
T Consensus       224 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~~  301 (462)
T 3geh_A          224 GLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQAA  301 (462)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CCC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhhh
Confidence            578999999999999999999987543 34445555566555666777  5689999999866543322        357


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      ..+|++++|+|++++.+... ..++..+.     ..|+++|+||+|+.+.....  ....+  ..+.+++++||++|.|+
T Consensus       302 ~~aD~vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~~~~~~~--~~~~~--~~~~~~i~iSAktg~Gi  371 (462)
T 3geh_A          302 NTADLVLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLVEKQLIT--SLEYP--ENITQIVHTAAAQKQGI  371 (462)
T ss_dssp             CSCSEEEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSSCGGGST--TCCCC--TTCCCEEEEBTTTTBSH
T ss_pred             hcCCEEEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCCcchhhH--HHHHh--ccCCcEEEEECCCCCCH
Confidence            89999999999998755444 34444442     37999999999997655433  11111  13568999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028507          160 KPLFRKIAAALPGM  173 (208)
Q Consensus       160 ~~~~~~l~~~~~~~  173 (208)
                      ++++++|.+.+...
T Consensus       372 ~eL~~~i~~~~~~~  385 (462)
T 3geh_A          372 DSLETAILEIVQTG  385 (462)
T ss_dssp             HHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999988654

>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=99.88  E-value=4.5e-22  Score=150.52  Aligned_cols=163  Identities=12%  Similarity=0.088  Sum_probs=107.6

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCc-CCCCCCCc-cceeeEEEEEEECCEEEEEEEEEcCCchhhhhc---------
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDK-FDNTYQAT-IGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL---------   74 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~---------   74 (208)
                      ..+.++|+|+|++|+|||||+++|++.. +.....++ ++.+.......+.+  ..+.||||||+..+...         
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            3467999999999999999999999877 44444443 44555555666666  56999999998765322         


Q ss_pred             --hhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEe-CCCCCcccCCCH-------HHHHHHHH
Q 028507           75 --IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS--DVIIVLVGN-KTDLVEKRQVSI-------EEGEAKSR  142 (208)
Q Consensus        75 --~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piivv~n-K~D~~~~~~~~~-------~~~~~~~~  142 (208)
                        ...+++.+|++|+|+|+++.....  ..++..+....+.  ..|+++++| |+|+.... +..       .+....+.
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~--~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~~-~~~~i~~~~~~~~~~~~~  173 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQD--QQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGGS-LMDYMHDSDNKALSKLVA  173 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHH--HHHHHHHHHHHCGGGGGGEEEEEECGGGGTTCC-HHHHHHHCCCHHHHHHHH
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHH--HHHHHHHHHHhCchhhccEEEEEEcccccCCcc-HHHHHHhcchHHHHHHHH
Confidence              223568999999999998632221  1222333333221  356666666 99986432 111       22333555


Q ss_pred             hcCCe---E--EEeecCCCCChHHHHHHHHHHcCCC
Q 028507          143 ELNVM---F--IETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       143 ~~~~~---~--~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      ..+..   +  +++||+++.|++++|++|.+.+...
T Consensus       174 ~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          174 ACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             HTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            55432   2  7899999999999999999988643

>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=99.87  E-value=1.5e-21  Score=161.98  Aligned_cols=160  Identities=19%  Similarity=0.283  Sum_probs=114.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc--CCC-------------CCCCccceeeEEEEEEE---CCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK--FDN-------------TYQATIGIDFLSKTMYL---EDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~   69 (208)
                      +-.+|+|+|+.++|||||+++|+...  +..             +.....++......+.+   ++..+.++||||||+.
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            45799999999999999999998531  110             00111122111122222   4556899999999999


Q ss_pred             hhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC---
Q 028507           70 RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV---  146 (208)
Q Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~---  146 (208)
                      +|...+...+..+|++|+|+|+++..+......|+....    .++|+++++||+|+....  .......+...+++   
T Consensus        85 dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~~  158 (600)
T 2ywe_A           85 DFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDPE  158 (600)
T ss_dssp             GGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCGG
T ss_pred             hHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCCCcc
Confidence            999988889999999999999998766777666665543    359999999999986543  12233445555666   


Q ss_pred             eEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          147 MFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       147 ~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      .++++||++|.|+.++|++|.+.++..
T Consensus       159 ~vi~vSAktg~GI~~Lle~I~~~lp~p  185 (600)
T 2ywe_A          159 EAILASAKEGIGIEEILEAIVNRIPPP  185 (600)
T ss_dssp             GCEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             cEEEEEeecCCCchHHHHHHHHhcccc
Confidence            489999999999999999999998753

>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=99.87  E-value=2.2e-21  Score=152.86  Aligned_cols=160  Identities=19%  Similarity=0.115  Sum_probs=109.2

Q ss_pred             cee-EEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch---------hhhhchhhh
Q 028507            9 KYK-LVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE---------RFRSLIPSY   78 (208)
Q Consensus         9 ~~~-i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~   78 (208)
                      .++ |+|+|.+|+|||||+|+|.+..+.....+..+.+.....+.+++  ..+.+|||+|..         .+..... .
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl~-~  254 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTLS-E  254 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHHH-G
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHHH-H
Confidence            355 99999999999999999998876544555566666677777877  468999999962         2333333 4


Q ss_pred             ccCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-HHHHHHHHHhc---CCeEEEee
Q 028507           79 IRDSSVAVVVYDVASRQ--SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-IEEGEAKSREL---NVMFIETS  152 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-~~~~~~~~~~~---~~~~~~~s  152 (208)
                      +..+|++++|+|++++.  ....+..+...+......+.|+++|+||+|+.+..... ...+..++..+   +.+++++|
T Consensus       255 ~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~S  334 (364)
T 2qtf_A          255 AKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPIS  334 (364)
T ss_dssp             GGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECB
T ss_pred             HHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEE
Confidence            78999999999999876  45555556655555444568999999999986543100 11222233444   24789999


Q ss_pred             cCCCCChHHHHHHHHHHcC
Q 028507          153 AKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~  171 (208)
                      |+++.|+++++++|.+.+.
T Consensus       335 A~~g~gi~~L~~~I~~~l~  353 (364)
T 2qtf_A          335 ALKRTNLELLRDKIYQLAT  353 (364)
T ss_dssp             TTTTBSHHHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHhc
Confidence            9999999999999988764

>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=99.87  E-value=4.4e-22  Score=161.02  Aligned_cols=178  Identities=20%  Similarity=0.199  Sum_probs=116.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhch-----------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-----------   75 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----------   75 (208)
                      ..++|+|+|++|+|||||+|+|++.... ....++++.+.....+.+++.  .+.+|||+|........           
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~  256 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYR  256 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHHH
Confidence            4589999999999999999999987642 333445555555566777774  58999999975432221           


Q ss_pred             -hhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHH-----HHhcCCeEE
Q 028507           76 -PSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAK-----SRELNVMFI  149 (208)
Q Consensus        76 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~  149 (208)
                       ..++..+|++++|+|+++..+.... .+...+. .  .+.|+++++||+|+.+.+.....+....     ....+++++
T Consensus       257 ~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~-~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (439)
T 1mky_A          257 VVDSIEKADVVVIVLDATQGITRQDQ-RMAGLME-R--RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLI  332 (439)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHH-H--TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHH-H--cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEE
Confidence             2356789999999999875544432 2222222 2  3599999999999976554434333222     222356999


Q ss_pred             EeecCCCCChHHHHHHHHHHcCCCcccccccccccccccccc
Q 028507          150 ETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVDVNLRS  191 (208)
Q Consensus       150 ~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  191 (208)
                      ++||++|.|++++|+.+.+.+.+...+.++........+...
T Consensus       333 ~~SA~~g~gv~~l~~~i~~~~~~~~~~i~t~~ln~~l~~~~~  374 (439)
T 1mky_A          333 FTSADKGWNIDRMIDAMNLAYASYTTKVPSSAINSALQKVLA  374 (439)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHT
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHH
Confidence            999999999999999999988766555555444443333333

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.87  E-value=1.9e-22  Score=153.68  Aligned_cols=163  Identities=15%  Similarity=0.228  Sum_probs=95.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCC-------CCccceeeEEEEEEECCEEEEEEEEEcCCchh-------
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTY-------QATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------   70 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------   70 (208)
                      ....++|+|+|.+|+|||||+|+|++.... ..+       .++.+.+.....+..++..+.+.||||||...       
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~   84 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC   84 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTT
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhh
Confidence            345799999999999999999998866543 333       45555566555555566557899999999732       


Q ss_pred             hhhch-------hhhc-------------cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           71 FRSLI-------PSYI-------------RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        71 ~~~~~-------~~~~-------------~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      +..+.       ..++             ..+|+++++++.+.......-..++..+..    .+|+++|+||+|+....
T Consensus        85 ~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~  160 (274)
T 3t5d_A           85 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPE  160 (274)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHH
Confidence            22221       2222             237899999877652111112233443432    69999999999986543


Q ss_pred             CCC--HHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          131 QVS--IEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       131 ~~~--~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +..  ..++...+...+++++++|+.+++++.+++++|.+.++-
T Consensus       161 e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~p~  204 (274)
T 3t5d_A          161 ECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLPL  204 (274)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTCSE
T ss_pred             HHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCCCc
Confidence            321  233455556678899999999999999999999988753

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.87  E-value=1e-23  Score=172.80  Aligned_cols=161  Identities=17%  Similarity=0.181  Sum_probs=114.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.++|+++|++++|||||+++|.+..+.....++.+.+.....+...++ ..++||||||++.|..++..++..+|++|+
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g-~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSG-EKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCS-SCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCC-CEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            4589999999999999999999977665445555554443333333221 369999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-HHHHHHH---HHhc--CCeEEEeecCCCCChHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-IEEGEAK---SREL--NVMFIETSAKAGFNIKP  161 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-~~~~~~~---~~~~--~~~~~~~sa~~~~~i~~  161 (208)
                      |+|+++.........    +......++|+++++||+|+.+..... ..+....   +..+  .++++++||++|.|+++
T Consensus        82 VVDa~dg~~~qt~e~----l~~~~~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~e  157 (537)
T 3izy_P           82 VVAADDGVMKQTVES----IQHAKDAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMA  157 (537)
T ss_dssp             ECBSSSCCCHHHHHH----HHHHHTTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHH
T ss_pred             EEECCCCccHHHHHH----HHHHHHcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchh
Confidence            999997543333222    222333468999999999986533211 1111111   1122  24899999999999999


Q ss_pred             HHHHHHHHcCCC
Q 028507          162 LFRKIAAALPGM  173 (208)
Q Consensus       162 ~~~~l~~~~~~~  173 (208)
                      +|++|...+...
T Consensus       158 Lle~I~~l~~~~  169 (537)
T 3izy_P          158 LAEATIALAEML  169 (537)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHhhhcc
Confidence            999999887543

>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=99.86  E-value=1.1e-21  Score=160.35  Aligned_cols=152  Identities=18%  Similarity=0.243  Sum_probs=99.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC-------------------------------CCCCCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF-------------------------------DNTYQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~   55 (208)
                      ...+||+++|.+++|||||+++|++...                               .....+..+++.....+...+
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            3569999999999999999999975511                               111122333343444444443


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHH-----HHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLN-----TSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-----~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                        +.+.||||||+++|......++..+|++|+|+|+++..++..     ...+...+....+ ..|+++|+||+|+.+.+
T Consensus       111 --~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~-~~~iIvviNK~Dl~~~~  187 (483)
T 3p26_A          111 --ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLG-IHNLIIAMNKMDNVDWS  187 (483)
T ss_dssp             --CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTT-CCCEEEEEECGGGGTTC
T ss_pred             --ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcC-CCcEEEEEECcCcccch
Confidence              679999999999999999999999999999999998643221     2222222222222 24699999999997643


Q ss_pred             CCCHHHHH----HHHHhc-----CCeEEEeecCCCCChHH
Q 028507          131 QVSIEEGE----AKSREL-----NVMFIETSAKAGFNIKP  161 (208)
Q Consensus       131 ~~~~~~~~----~~~~~~-----~~~~~~~sa~~~~~i~~  161 (208)
                      +...++..    .++...     +++++++||++|.|+.+
T Consensus       188 ~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          188 QQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            32233332    233333     35899999999999874

>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=99.86  E-value=3.5e-22  Score=162.38  Aligned_cols=157  Identities=17%  Similarity=0.201  Sum_probs=101.9

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCC--------chhhhhchh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG--------QERFRSLIP   76 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~   76 (208)
                      .|...+|+|+|.+|||||||+|+|++..+. ....+..+.+.....  .......+.+|||||        ++.+.....
T Consensus        20 ~m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~~~~--~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~   97 (456)
T 4dcu_A           20 HMGKPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSS--AEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAE   97 (456)
T ss_dssp             ---CCEEEEECSSSSSHHHHHHHHEEEEEC-----------CEEEE--CTTCSSCCEEECCCC------CCHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcceeEEEEE--EEECCceEEEEECCCCCCcchHHHHHHHHHHH
Confidence            466789999999999999999999987764 222333333333333  333335799999999        667777788


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCC
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKA  155 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~  155 (208)
                      .++..+|++|+|+|..+.  +.....++..+...  .++|+++|+||+|+.+...    .... ...+++ ..+++||++
T Consensus        98 ~~~~~ad~il~VvD~~~~--~~~~d~~l~~~l~~--~~~pvilV~NK~D~~~~~~----~~~e-~~~lg~~~~~~iSA~~  168 (456)
T 4dcu_A           98 IAMDEADVIIFMVNGREG--VTAADEEVAKILYR--TKKPVVLAVNKLDNTEMRA----NIYD-FYSLGFGEPYPISGTH  168 (456)
T ss_dssp             HHHHHCSEEEEEEESSSC--SCHHHHHHHHHHTT--CCSCEEEEEECC-------------CC-SGGGSSSSEEECCTTT
T ss_pred             hhHhhCCEEEEEEeCCCC--CChHHHHHHHHHHH--cCCCEEEEEECccchhhhh----hHHH-HHHcCCCceEEeeccc
Confidence            889999999999998753  23333444443332  4699999999999854321    1111 122343 567999999


Q ss_pred             CCChHHHHHHHHHHcCCC
Q 028507          156 GFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~~~  173 (208)
                      |.|+.++++.+...+.+.
T Consensus       169 g~gv~~L~~~i~~~l~~~  186 (456)
T 4dcu_A          169 GLGLGDLLDAVAEHFKNI  186 (456)
T ss_dssp             CTTHHHHHHHHHTTGGGS
T ss_pred             ccchHHHHHHHHhhcccc
Confidence            999999999999877543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.86  E-value=8.4e-22  Score=142.35  Aligned_cols=116  Identities=18%  Similarity=0.318  Sum_probs=88.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCC---CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccC--
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDN---TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRD--   81 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~--   81 (208)
                      .+.++|+|+|++|+|||||+++|.+..+..   ...++.+.++         ..+.+.+||+||+..+...+..++..  
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~  116 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTRA  116 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------CC---------CCTTCSEEEETTCCBSSCCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeeee---------cCCeEEEEECCCCchHHHHHHHHHHhhc
Confidence            567899999999999999999999887643   2222222211         23569999999999887777776665  


Q ss_pred             --CcEEEEEEeCC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEeCCCCCcccC
Q 028507           82 --SSVAVVVYDVA-SRQSFLNTSKWIDEVRTE----RGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        82 --~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~piivv~nK~D~~~~~~  131 (208)
                        +|++|+|||++ +++++..+..|+..+...    ...++|+++|+||+|+.+...
T Consensus       117 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          117 KFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             GGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             ccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCC
Confidence              89999999999 899999988888877654    235799999999999976554

>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=99.85  E-value=3.8e-22  Score=161.16  Aligned_cols=154  Identities=17%  Similarity=0.252  Sum_probs=103.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cCCCC-----------------------------CCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KFDNT-----------------------------YQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   55 (208)
                      .+.++|+++|++++|||||+++|++.  .+...                             ..+..+++.....+...+
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~   83 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK   83 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCC
Confidence            46799999999999999999999864  22211                             112233333333333333


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHh----cCCCC-cEEEEEeCCCCCccc
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE----RGSDV-IIVLVGNKTDLVEKR  130 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~----~~~~~-piivv~nK~D~~~~~  130 (208)
                        +.+.||||||+++|...+..++..+|++|+|+|+++ .+|+.+..|......+    ...++ ++++++||+|+.+..
T Consensus        84 --~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~  160 (435)
T 1jny_A           84 --YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPP  160 (435)
T ss_dssp             --CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSST
T ss_pred             --eEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCcc
Confidence              679999999999999988889999999999999998 6666443322222111    11234 588999999997521


Q ss_pred             ------CCCHHHHHHHHHhcC-----CeEEEeecCCCCChHHHH
Q 028507          131 ------QVSIEEGEAKSRELN-----VMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       131 ------~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~  163 (208)
                            ....++...++..++     ++++++||++|.|+.+++
T Consensus       161 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~  204 (435)
T 1jny_A          161 YDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKS  204 (435)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCC
T ss_pred             ccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCccccccc
Confidence                  112345566666665     679999999999997543

>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=99.85  E-value=3.4e-21  Score=153.93  Aligned_cols=161  Identities=15%  Similarity=0.129  Sum_probs=110.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc-------CCCC-------CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK-------FDNT-------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS   73 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~-------~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   73 (208)
                      +.++|+++|++++|||||+++|++..       +...       .....+++.......+......+.||||||+++|..
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~   81 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHH
Confidence            46899999999999999999998641       1100       001122222222233333336799999999999988


Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccC---CCHHHHHHHHHhcC----
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQ---VSIEEGEAKSRELN----  145 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~---~~~~~~~~~~~~~~----  145 (208)
                      .....+..+|++|+|+|+++....... +++..+..   .++| +++++||+|+.+...   ....+...++..++    
T Consensus        82 ~~~~~~~~aD~~ilVvda~~g~~~qt~-e~l~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~  157 (397)
T 1d2e_A           82 NMITGTAPLDGCILVVAANDGPMPQTR-EHLLLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGE  157 (397)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCHHHH-HHHHHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTT
T ss_pred             HHHhhHhhCCEEEEEEECCCCCCHHHH-HHHHHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcc
Confidence            888889999999999999974332222 22333322   2478 789999999874211   11235556666665    


Q ss_pred             -CeEEEeecCCCCC----------hHHHHHHHHHHcCC
Q 028507          146 -VMFIETSAKAGFN----------IKPLFRKIAAALPG  172 (208)
Q Consensus       146 -~~~~~~sa~~~~~----------i~~~~~~l~~~~~~  172 (208)
                       ++++++||++|.+          +.++++.|.+.++.
T Consensus       158 ~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          158 ETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             TSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSCC
T ss_pred             cCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCCC
Confidence             5899999999764          88999999988864

>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=99.85  E-value=7.2e-21  Score=158.20  Aligned_cols=158  Identities=21%  Similarity=0.204  Sum_probs=106.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC----------------CEEEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE----------------DRTVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~G~~~   70 (208)
                      ++.++|+|+|++++|||||+++|++..+........+.+.........                .....++||||||++.
T Consensus         3 ~r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~   82 (594)
T 1g7s_A            3 IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEA   82 (594)
T ss_dssp             ECCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHH
Confidence            456899999999999999999998765532211111111111111110                0112599999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-------------H
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-------------I  134 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-------------~  134 (208)
                      |..++...+..+|++|+|+|+++   +++++.+..    +..   .++|+++++||+|+.......             .
T Consensus        83 F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~  155 (594)
T 1g7s_A           83 FTTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDI  155 (594)
T ss_dssp             CTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCH
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccCCchHHHHHHhHH
Confidence            99999988999999999999998   666554432    222   359999999999986432110             0


Q ss_pred             ----------HHHHHHHHhcC---------------CeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          135 ----------EEGEAKSRELN---------------VMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       135 ----------~~~~~~~~~~~---------------~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                                .+......+.+               .+++++||++|.|+.+++++|...++
T Consensus       156 ~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          156 QVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcc
Confidence                      01111122222               38999999999999999999988765

>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=99.85  E-value=1.1e-20  Score=152.68  Aligned_cols=151  Identities=19%  Similarity=0.184  Sum_probs=102.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC--CCC----------CC---------------------CccceeeEEEEEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF--DNT----------YQ---------------------ATIGIDFLSKTMYL   53 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~--~~~----------~~---------------------~~~~~~~~~~~~~~   53 (208)
                      ...++|+++|++++|||||+++|++...  ...          ..                     ...+++.....+..
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~  101 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFST  101 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEEC
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeec
Confidence            3468999999999999999999986531  100          00                     11222222233333


Q ss_pred             CCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--
Q 028507           54 EDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--  131 (208)
Q Consensus        54 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--  131 (208)
                      .+  ..+.||||||+++|...+..++..+|++|+|+|+++... ....+++..+.. .+ ..|+++++||+|+.+...  
T Consensus       102 ~~--~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~-~~-~~~iIvviNK~Dl~~~~~~~  176 (434)
T 1zun_B          102 AK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASL-LG-IKHIVVAINKMDLNGFDERV  176 (434)
T ss_dssp             SS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHH-TT-CCEEEEEEECTTTTTSCHHH
T ss_pred             CC--ceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHH-cC-CCeEEEEEEcCcCCcccHHH
Confidence            33  679999999999998888888999999999999997532 223333333332 22 135899999999975321  


Q ss_pred             C--CHHHHHHHHHhcC-----CeEEEeecCCCCChHHH
Q 028507          132 V--SIEEGEAKSRELN-----VMFIETSAKAGFNIKPL  162 (208)
Q Consensus       132 ~--~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~  162 (208)
                      +  ...+...++..++     ++++++||++|.|+.++
T Consensus       177 ~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~  214 (434)
T 1zun_B          177 FESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNK  214 (434)
T ss_dssp             HHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccc
Confidence            1  1344556666677     68999999999999874

>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=99.85  E-value=4e-22  Score=157.24  Aligned_cols=157  Identities=17%  Similarity=0.273  Sum_probs=85.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCC--------CCccceeeEEEEEEECCEEEEEEEEEcCCc-------hhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTY--------QATIGIDFLSKTMYLEDRTVRLQLWDTAGQ-------ERF   71 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~   71 (208)
                      ..++|+|+|++|+|||||+++|++... ....        .++.+.......+...+..+.+.+|||||+       +.+
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~  115 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF  115 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHH
Confidence            468999999999999999999876443 2222        134444443344444566678999999998       555


Q ss_pred             hhchh-------hhccCC-------------cEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           72 RSLIP-------SYIRDS-------------SVAVVVYDVASRQSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        72 ~~~~~-------~~~~~~-------------d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      ..+..       .++..+             |+++++++.+ ..++..+. .++..+    ...+|+++|+||+|+...+
T Consensus       116 ~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~  190 (361)
T 2qag_A          116 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLK  190 (361)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHH
Confidence            55544       443332             3444444432 23444443 233322    3569999999999997765


Q ss_pred             CCCH--HHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          131 QVSI--EEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       131 ~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++..  .++..++..++++++++||+++.+ .+.|..+...+
T Consensus       191 ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i  231 (361)
T 2qag_A          191 ERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLL  231 (361)
T ss_dssp             HHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHH
Confidence            5443  466777777889999999999988 66666655544

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.85  E-value=8.7e-21  Score=155.92  Aligned_cols=115  Identities=17%  Similarity=0.120  Sum_probs=83.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC----------------------CCCCCccceeeEEEEEEECCEEEEEEEEEc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD----------------------NTYQATIGIDFLSKTMYLEDRTVRLQLWDT   65 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   65 (208)
                      +..+|+|+|++|+|||||+++|+.....                      ....+..++......+.+.+  +.++||||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~liDT   89 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD--YLINLLDT   89 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT--EEEEEECC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC--EEEEEEEC
Confidence            4579999999999999999999621100                      00012233344445555665  67999999


Q ss_pred             CCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           66 AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        66 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      ||+.+|...+..+++.+|++|+|+|+++.........|. .+.   ..++|+++|+||+|+..
T Consensus        90 PG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~---~~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           90 PGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCR---LRHTPIMTFINKMDRDT  148 (528)
T ss_dssp             CCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHH---TTTCCEEEEEECTTSCC
T ss_pred             CCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHH---HcCCCEEEEEeCCCCcc
Confidence            999999999999999999999999999765555544332 222   24599999999999854

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.84  E-value=4e-21  Score=151.83  Aligned_cols=146  Identities=12%  Similarity=0.051  Sum_probs=106.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      +|+++|++++|||||+++|+        ....+++.....+..++  ..+.||||||+++|.......+..+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~--------~~giTi~~~~~~~~~~~--~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG--------KKGTSSDITMYNNDKEG--RNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS--------EEEEESSSEEEEECSSS--SEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH--------hCCEEEEeeEEEEecCC--eEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            99999999999999999998        22222333333343444  569999999999998877788899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEe-CCCCCcccCCC--HHHHHHHHHhcC---CeEEE--eecCC---CCC
Q 028507           91 VASRQSFLNTSKWIDEVRTERGSDVII-VLVGN-KTDLVEKRQVS--IEEGEAKSRELN---VMFIE--TSAKA---GFN  158 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~n-K~D~~~~~~~~--~~~~~~~~~~~~---~~~~~--~sa~~---~~~  158 (208)
                       ++ ....+..+++..+...   ++|. ++++| |+|+ +.....  .++...++...+   +++++  +||++   +.|
T Consensus        93 -~~-g~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~g  166 (370)
T 2elf_A           93 -PQ-GLDAHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEG  166 (370)
T ss_dssp             -TT-CCCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTT
T ss_pred             -CC-CCcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCC
Confidence             53 3344445555544432   3776 88889 9998 533221  144555555443   68999  99999   999


Q ss_pred             hHHHHHHHHHHcCC
Q 028507          159 IKPLFRKIAAALPG  172 (208)
Q Consensus       159 i~~~~~~l~~~~~~  172 (208)
                      ++++++.|.+.++.
T Consensus       167 i~~L~~~l~~~~~~  180 (370)
T 2elf_A          167 VDELKARINEVAEK  180 (370)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccc
Confidence            99999999988754

>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=99.84  E-value=2.6e-21  Score=155.10  Aligned_cols=162  Identities=20%  Similarity=0.196  Sum_probs=112.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--------cCCCC-------CCCccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--------KFDNT-------YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--------~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      .+.++|+++|++++|||||+++|++.        .+...       .....+++.......+......+.||||||+++|
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f   88 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADY   88 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGG
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHH
Confidence            46799999999999999999999863        11110       0011222222223333333367999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccC---CCHHHHHHHHHhcC--
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQ---VSIEEGEAKSRELN--  145 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~---~~~~~~~~~~~~~~--  145 (208)
                      .......+..+|++|+|+|+++... ....+++..+..   .++| +++++||+|+.+...   ....+...++..++  
T Consensus        89 ~~~~~~~~~~aD~~ilVvda~~g~~-~qt~~~l~~~~~---~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~  164 (405)
T 2c78_A           89 IKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFP  164 (405)
T ss_dssp             HHHHHHHHTTCSSEEEEEETTTCCC-HHHHHHHHHHHH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhccc
Confidence            8888888999999999999987543 333445544433   2478 889999999874211   11234555666655  


Q ss_pred             ---CeEEEeecCCCCC------------------hHHHHHHHHHHcCC
Q 028507          146 ---VMFIETSAKAGFN------------------IKPLFRKIAAALPG  172 (208)
Q Consensus       146 ---~~~~~~sa~~~~~------------------i~~~~~~l~~~~~~  172 (208)
                         ++++++||++|.|                  +.++++.|...++.
T Consensus       165 ~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp~  212 (405)
T 2c78_A          165 GDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIPT  212 (405)
T ss_dssp             TTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSCC
T ss_pred             ccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcCC
Confidence               6899999999987                  78888888887763

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.84  E-value=2.2e-20  Score=146.41  Aligned_cols=122  Identities=18%  Similarity=0.254  Sum_probs=100.6

Q ss_pred             EEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHHhc-CCCCcE
Q 028507           49 KTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVAS----------RQSFLNTSKWIDEVRTER-GSDVII  117 (208)
Q Consensus        49 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~pi  117 (208)
                      ..+.+++  +.+.+||++|++.++..|..++++++++|+|||+++          .+++.....|+..+.... ..++|+
T Consensus       186 ~~~~~~~--~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~pi  263 (353)
T 1cip_A          186 THFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSI  263 (353)
T ss_dssp             EEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEE
T ss_pred             EEEeeCC--eeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcE
Confidence            3344444  789999999999999999999999999999999998          456888888888886642 256999


Q ss_pred             EEEEeCCCCCccc---------------CCCHHHHHHHHH-----------hcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          118 VLVGNKTDLVEKR---------------QVSIEEGEAKSR-----------ELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       118 ivv~nK~D~~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ++++||+|+.+++               ....+++..++.           ..++.+++|||+++.|+.++|+++.+.+.
T Consensus       264 iLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~  343 (353)
T 1cip_A          264 ILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII  343 (353)
T ss_dssp             EEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHH
Confidence            9999999985432               356778877776           35678999999999999999999998874


Q ss_pred             C
Q 028507          172 G  172 (208)
Q Consensus       172 ~  172 (208)
                      +
T Consensus       344 ~  344 (353)
T 1cip_A          344 K  344 (353)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.84  E-value=4.5e-20  Score=142.69  Aligned_cols=124  Identities=15%  Similarity=0.167  Sum_probs=99.8

Q ss_pred             EEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHHhcC-CCCc
Q 028507           48 SKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVA----------SRQSFLNTSKWIDEVRTERG-SDVI  116 (208)
Q Consensus        48 ~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~~~~~-~~~p  116 (208)
                      ...+..++  +++.+||++|++.++..|..++++++++|+|||++          +.+++.....|+..+..... .++|
T Consensus       159 ~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~  236 (327)
T 3ohm_A          159 EYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSS  236 (327)
T ss_dssp             EEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCE
T ss_pred             EEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCce
Confidence            34444554  78999999999999999999999999999999664          56778777777777765432 5799


Q ss_pred             EEEEEeCCCCCccc----------------CCCHHHHHHHH----------HhcCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          117 IVLVGNKTDLVEKR----------------QVSIEEGEAKS----------RELNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       117 iivv~nK~D~~~~~----------------~~~~~~~~~~~----------~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      +++++||+|+.+++                ..+.+++..++          ...++.+++|||+++.|++.+|..+.+.+
T Consensus       237 iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~I  316 (327)
T 3ohm_A          237 VILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTI  316 (327)
T ss_dssp             EEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             EEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHH
Confidence            99999999986644                45677777773          34567889999999999999999999988


Q ss_pred             CCC
Q 028507          171 PGM  173 (208)
Q Consensus       171 ~~~  173 (208)
                      .+.
T Consensus       317 l~~  319 (327)
T 3ohm_A          317 LQL  319 (327)
T ss_dssp             HHT
T ss_pred             HHH
Confidence            543

>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=99.84  E-value=2.4e-22  Score=163.41  Aligned_cols=155  Identities=22%  Similarity=0.236  Sum_probs=108.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+..+|+++|++++|||||+++|....+.....++.+.+.....+.+++  ..++||||||++.|..++...+..+|++|
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aI   79 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVV   79 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEE
Confidence            3568999999999999999999987665443333333333222333344  46899999999999999999999999999


Q ss_pred             EEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc--CCCHH--HHHHHHHhcC--CeEEEeecCCCC
Q 028507           87 VVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR--QVSIE--EGEAKSRELN--VMFIETSAKAGF  157 (208)
Q Consensus        87 ~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~--~~~~~--~~~~~~~~~~--~~~~~~sa~~~~  157 (208)
                      +|+|+++   +++.+.+    ..+.   ..++|+++++||+|+.+..  .+...  +...++..++  ++++++||++|.
T Consensus        80 LVVda~~g~~~qT~e~l----~~~~---~~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~  152 (501)
T 1zo1_I           80 LVVAADDGVMPQTIEAI----QHAK---AAQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGT  152 (501)
T ss_dssp             EEEETTTBSCTTTHHHH----HHHH---HTTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCT
T ss_pred             EEeecccCccHHHHHHH----HHHH---hcCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeecc
Confidence            9999987   3333322    2222   2358999999999996432  11000  0001112233  689999999999


Q ss_pred             ChHHHHHHHHHHc
Q 028507          158 NIKPLFRKIAAAL  170 (208)
Q Consensus       158 ~i~~~~~~l~~~~  170 (208)
                      |+.++|++|....
T Consensus       153 gI~eLle~I~~~~  165 (501)
T 1zo1_I          153 GIDELLDAILLQA  165 (501)
T ss_dssp             TCTTHHHHTTTTC
T ss_pred             Ccchhhhhhhhhh
Confidence            9999999987643

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.84  E-value=4.6e-21  Score=160.14  Aligned_cols=153  Identities=16%  Similarity=0.227  Sum_probs=101.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCC-------------------------------CCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTY-------------------------------QATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~   55 (208)
                      ...++|+++|++|+|||||+++|++.......                               .+.++++.....+...+
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~  244 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  244 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC
Confidence            35789999999999999999999865321111                               12333343344444444


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh---hH--HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ---SF--LNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~--~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                        +.+.||||||+++|......++..+|++|+|+|+++..   ++  .........+....+ ..|+++|+||+|+.+.+
T Consensus       245 --~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lg-i~~iIVVvNKiDl~~~~  321 (611)
T 3izq_1          245 --ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLG-IHNLIIAMNKMDNVDWS  321 (611)
T ss_dssp             --CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTT-CCEEEEEEECTTTTTTC
T ss_pred             --ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcC-CCeEEEEEecccccchh
Confidence              57999999999999999999999999999999998632   11  111111222222221 24599999999997633


Q ss_pred             CCCH----HHHHHHHHhcC-----CeEEEeecCCCCChHHH
Q 028507          131 QVSI----EEGEAKSRELN-----VMFIETSAKAGFNIKPL  162 (208)
Q Consensus       131 ~~~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~  162 (208)
                      ....    .+...++...+     ++++++||++|.|+.++
T Consensus       322 ~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          322 QQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            2222    22333333333     58999999999999865

>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=99.83  E-value=1.4e-21  Score=159.07  Aligned_cols=155  Identities=17%  Similarity=0.250  Sum_probs=90.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cCCC-----------------------------CCCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KFDN-----------------------------TYQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   55 (208)
                      .+.++|+++|+.++|||||+++|+..  .+..                             +.....+++.....+..++
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~  120 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  120 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCC
Confidence            35689999999999999999999742  2210                             0011222222223344444


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh---hHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCccc-
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ---SFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKR-  130 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~-  130 (208)
                        ..+.||||||+++|...+...+..+|++|+|+|+++..   +|+....+...+......++| +++++||+|+.+.. 
T Consensus       121 --~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~  198 (467)
T 1r5b_A          121 --RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQW  198 (467)
T ss_dssp             --EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS
T ss_pred             --eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccc
Confidence              57999999999999998888899999999999999752   232212222222222223577 99999999985421 


Q ss_pred             -----CCCHHHHHHHHHhc-------CCeEEEeecCCCCChHHHH
Q 028507          131 -----QVSIEEGEAKSREL-------NVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       131 -----~~~~~~~~~~~~~~-------~~~~~~~sa~~~~~i~~~~  163 (208)
                           .....+...++...       +++++++||++|.|+.+++
T Consensus       199 ~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          199 SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             cHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence                 11123455556555       3579999999999998754

>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=99.82  E-value=5.6e-21  Score=155.09  Aligned_cols=150  Identities=17%  Similarity=0.206  Sum_probs=101.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cCCCC-----------------------------CCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KFDNT-----------------------------YQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   55 (208)
                      .+.++|+++|++++|||||+++|++.  .+...                             .....+++.....+...+
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~   84 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCC
Confidence            46799999999999999999999864  22110                             012223333333444444


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh---hHH---HHHHHHHHHHHhcCCCCc-EEEEEeCCCCCc
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ---SFL---NTSKWIDEVRTERGSDVI-IVLVGNKTDLVE  128 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~  128 (208)
                        ..+.||||||+++|.......+..+|++|+|+|+++..   +|+   ...+.+..+. .  .++| +++++||+|+.+
T Consensus        85 --~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~-~--~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A           85 --YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAF-T--LGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             --EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHH-H--TTCCEEEEEEECGGGGT
T ss_pred             --ceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHH-H--cCCCeEEEEEEcccccc
Confidence              67999999999999998888999999999999998642   221   2222222222 2  2465 899999999973


Q ss_pred             ccC----CCHHHHHHHHHhcC-----CeEEEeecCCCCChHH
Q 028507          129 KRQ----VSIEEGEAKSRELN-----VMFIETSAKAGFNIKP  161 (208)
Q Consensus       129 ~~~----~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  161 (208)
                      ...    ....+...++..++     ++++++||++|.|+.+
T Consensus       160 ~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~  201 (458)
T 1f60_A          160 WDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  201 (458)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCccc
Confidence            211    11234455555555     6899999999999864

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.82  E-value=2e-19  Score=136.14  Aligned_cols=127  Identities=13%  Similarity=0.160  Sum_probs=90.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc----
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR----   80 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~----   80 (208)
                      .++.++|+++|.+|+|||||+++|++..+. ....+.++.......+..++  ..+.||||||+.++......+++    
T Consensus        33 ~~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~  110 (262)
T 3def_A           33 DMNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKG  110 (262)
T ss_dssp             TCCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHH
Confidence            357899999999999999999999988752 23333334444555566666  47999999999877655444432    


Q ss_pred             -----CCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCC--CcEEEEEeCCCCCcccCCCHH
Q 028507           81 -----DSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSD--VIIVLVGNKTDLVEKRQVSIE  135 (208)
Q Consensus        81 -----~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~--~piivv~nK~D~~~~~~~~~~  135 (208)
                           ++|++++|++++... +.. ...|+..+....+.+  .|+++|+||+|+.+......+
T Consensus       111 ~l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~e  172 (262)
T 3def_A          111 FLVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSYE  172 (262)
T ss_dssp             HTTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCHH
T ss_pred             HHhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccHH
Confidence                 789999999987644 333 346777776665533  489999999999655444433

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.82  E-value=8.6e-20  Score=142.98  Aligned_cols=116  Identities=19%  Similarity=0.206  Sum_probs=92.5

Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCC
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVA----------SRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKT  124 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~  124 (208)
                      +.+.+.+||++|++.++..+..++++++++|+|||++          +.++++....|+..+.... ..++|+++|+||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5689999999999999999999999999999999998          7789999999998887643 2679999999999


Q ss_pred             CCCcccC--C-------------------CHHHHHHHHHh----------------cCCeEEEeecCCCCChHHHHHHHH
Q 028507          125 DLVEKRQ--V-------------------SIEEGEAKSRE----------------LNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus       125 D~~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |+.+++.  .                   ..+++..++..                ..+.+++|||+++.||+++|+++.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            9854322  1                   13555555332                123568999999999999999999


Q ss_pred             HHcC
Q 028507          168 AALP  171 (208)
Q Consensus       168 ~~~~  171 (208)
                      +.+.
T Consensus       341 ~~I~  344 (354)
T 2xtz_A          341 ETLR  344 (354)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8774

>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=99.82  E-value=4e-20  Score=160.80  Aligned_cols=162  Identities=16%  Similarity=0.124  Sum_probs=109.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCc-------CCC-------CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDK-------FDN-------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      .+.++|+++|++++|||||+++|++..       +..       ......+++.....+.++.....+.||||||+++|.
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~  373 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYV  373 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHH
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHH
Confidence            467999999999999999999998631       000       011122222222222333334679999999999999


Q ss_pred             hchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCC---CHHHHHHHHHhcC---
Q 028507           73 SLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQV---SIEEGEAKSRELN---  145 (208)
Q Consensus        73 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~---~~~~~~~~~~~~~---  145 (208)
                      ......+..+|++|+|+|+++... .+..+++..+...   ++| +++++||+|+.+..+.   ...++..++..++   
T Consensus       374 ~~mi~gas~AD~aILVVDAtdGv~-~QTrEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~  449 (1289)
T 3avx_A          374 KNMITGAAQMDGAILVVAATDGPM-PQTREHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPG  449 (1289)
T ss_dssp             HHHHHTSCCCSEEEEEEETTTCSC-TTHHHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHHhhCCEEEEEEcCCccCc-HHHHHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccc
Confidence            888888999999999999987532 2233444444332   478 7899999999752211   1234556666665   


Q ss_pred             --CeEEEeecCCC--------CChHHHHHHHHHHcCC
Q 028507          146 --VMFIETSAKAG--------FNIKPLFRKIAAALPG  172 (208)
Q Consensus       146 --~~~~~~sa~~~--------~~i~~~~~~l~~~~~~  172 (208)
                        ++++++||++|        .++.++++.|...++.
T Consensus       450 ~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip~  486 (1289)
T 3avx_A          450 DDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPE  486 (1289)
T ss_dssp             TTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSCC
T ss_pred             cceeEEEEEeccCCCCCccccccchhhHhHHhhhcCC
Confidence              58999999999        4688999999887753

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.81  E-value=3e-21  Score=160.82  Aligned_cols=161  Identities=20%  Similarity=0.238  Sum_probs=89.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC-------------------------------CCCCCCccceeeEEEEEEECC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF-------------------------------DNTYQATIGIDFLSKTMYLED   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~   55 (208)
                      ...++|+++|++++|||||+++|++...                               .....++++++.....+... 
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~-  253 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESD-  253 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHHHHHCC--------------------------------------------------
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeC-
Confidence            4568999999999999999999964210                               11112333334333333333 


Q ss_pred             EEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh---hH--HHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcc
Q 028507           56 RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ---SF--LNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEK  129 (208)
Q Consensus        56 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~--~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~  129 (208)
                       ...+.||||||+.+|...+...+..+|++|+|+|+++..   ++  ......+..+....  ++| +++|+||+|+.+.
T Consensus       254 -~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l--gip~iIvviNKiDl~~~  330 (592)
T 3mca_A          254 -KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL--GISEIVVSVNKLDLMSW  330 (592)
T ss_dssp             ------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS--SCCCEEEEEECGGGGTT
T ss_pred             -CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc--CCCeEEEEEeccccccc
Confidence             367999999999999988888899999999999998532   12  11111111222222  365 8999999998652


Q ss_pred             cCCC----HHHHHHHH-HhcCC-----eEEEeecCCCCChH--------------HHHHHHHHHcC
Q 028507          130 RQVS----IEEGEAKS-RELNV-----MFIETSAKAGFNIK--------------PLFRKIAAALP  171 (208)
Q Consensus       130 ~~~~----~~~~~~~~-~~~~~-----~~~~~sa~~~~~i~--------------~~~~~l~~~~~  171 (208)
                      ....    ..+...++ ...++     +++++||++|.|+.              .+++.|...++
T Consensus       331 ~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~e~~~~~~~~w~~g~~Lle~l~~~~p  396 (592)
T 3mca_A          331 SEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQKDSSDLYKWYKGPTLLSALDQLVP  396 (592)
T ss_dssp             CHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSCSCCCCGGGGTCCSCCHHHHHHTSCC
T ss_pred             cHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccccccccccccccchHHHHHHHHhhcc
Confidence            2111    22333444 44454     79999999999998              68888877654

>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=99.81  E-value=1.4e-19  Score=132.35  Aligned_cols=157  Identities=17%  Similarity=0.213  Sum_probs=99.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh----------hhhchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER----------FRSLIP   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~   76 (208)
                      .+..+|+++|++|+|||||+++|.+..+.....++.+.+.....+.+++   .+.+||+||...          +.....
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  100 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALG  100 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHH
Confidence            4568999999999999999999998774333344444443333333333   478999999732          222233


Q ss_pred             hhc---cCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC--CCHHHHHHHHHhcC--Ce
Q 028507           77 SYI---RDSSVAVVVYDVASRQSFLN--TSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ--VSIEEGEAKSRELN--VM  147 (208)
Q Consensus        77 ~~~---~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~--~~~~~~~~~~~~~~--~~  147 (208)
                      .++   ..++++++++|++++.+...  +..|+   . .  .++|+++++||+|+.+..+  .....+..++...+  +.
T Consensus       101 ~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~---~-~--~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~  174 (210)
T 1pui_A          101 EYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWA---V-D--SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQ  174 (210)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHH---H-H--TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEE
T ss_pred             HHHHhhhcccEEEEEEECCCCCchhHHHHHHHH---H-H--cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCc
Confidence            333   57899999999987644332  22222   1 2  3588999999999865422  11344555555554  47


Q ss_pred             EEEeecCCCCChHHHHHHHHHHcCC
Q 028507          148 FIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       148 ~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ++++|++++.++++++++|.+.+.+
T Consensus       175 ~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          175 VETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             eEEEeecCCCCHHHHHHHHHHHHhh
Confidence            8999999999999999999987754

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.81  E-value=3.7e-20  Score=142.64  Aligned_cols=160  Identities=19%  Similarity=0.208  Sum_probs=102.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCC------CCCc----------------------ccee-------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNT------YQAT----------------------IGID-------------   45 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~------~~~~----------------------~~~~-------------   45 (208)
                      ...++|+|+|.+|+|||||+|+|++..+...      ..++                      ++.+             
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i  103 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHh
Confidence            4568999999999999999999998876321      1122                      0000             


Q ss_pred             ----------eEEEEEEECCEEEEEEEEEcCCch-------------hhhhchhhhccCCcEEE-EEEeCCChhhHHHHH
Q 028507           46 ----------FLSKTMYLEDRTVRLQLWDTAGQE-------------RFRSLIPSYIRDSSVAV-VVYDVASRQSFLNTS  101 (208)
Q Consensus        46 ----------~~~~~~~~~~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~  101 (208)
                                .....+... ....+.||||||..             .+..+...++..++.+| +|+|+++..+.....
T Consensus       104 ~g~~~gi~~~~~~~~~~~~-~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~  182 (299)
T 2aka_B          104 TGTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  182 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEET-TCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHH
T ss_pred             cccCCCccccceEEEEeCC-CCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHH
Confidence                      000001111 02469999999963             34556667788888776 799998653333322


Q ss_pred             HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh--cC-CeEEEeecCCCCChHHHHHHHHHHc
Q 028507          102 KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE--LN-VMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       102 ~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~--~~-~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      .++..+   ...+.|+++|+||+|+.+...............  .+ .+++++||+++.|+++++++|....
T Consensus       183 ~~~~~~---~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          183 KIAKEV---DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             HHHHHH---CTTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             HHHHHh---CCCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHH
Confidence            333333   234689999999999976544333322211111  13 3688999999999999999988743

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.80  E-value=1.5e-19  Score=140.24  Aligned_cols=116  Identities=22%  Similarity=0.267  Sum_probs=93.9

Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCC
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVA----------SRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTD  125 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D  125 (208)
                      .+.+.+||++|++.++..|..++++++++|+|||++          +.+++.....|+..+..... .++|+++++||+|
T Consensus       160 ~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~D  239 (340)
T 4fid_A          160 DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMD  239 (340)
T ss_dssp             SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHH
T ss_pred             eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECch
Confidence            378999999999999999999999999999999998          67788888888888765433 6799999999999


Q ss_pred             CCccc---------------CCCHHHHHHHHHh-c--------------------------CCeEEEeecCCCCChHHHH
Q 028507          126 LVEKR---------------QVSIEEGEAKSRE-L--------------------------NVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       126 ~~~~~---------------~~~~~~~~~~~~~-~--------------------------~~~~~~~sa~~~~~i~~~~  163 (208)
                      +.+++               ....+++..++.. +                          .+.++++||++..+++.+|
T Consensus       240 L~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF  319 (340)
T 4fid_A          240 LFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVF  319 (340)
T ss_dssp             HHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHHH
T ss_pred             hhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHHH
Confidence            86421               1234555444332 2                          3678999999999999999


Q ss_pred             HHHHHHcCC
Q 028507          164 RKIAAALPG  172 (208)
Q Consensus       164 ~~l~~~~~~  172 (208)
                      ..+.+.+.+
T Consensus       320 ~~v~~~Il~  328 (340)
T 4fid_A          320 MLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988765

>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=99.80  E-value=6.7e-19  Score=148.69  Aligned_cols=121  Identities=15%  Similarity=0.143  Sum_probs=82.0

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCC------------------CCccceeeEEEEEEECCEEEEEEE
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTY------------------QATIGIDFLSKTMYLEDRTVRLQL   62 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i   62 (208)
                      |......+..+|+|+|+.|+|||||+++|++.......                  ....++......+....  +.++|
T Consensus         1 ~~s~~~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~--~~~nl   78 (665)
T 2dy1_A            1 MGTEGGAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFL   78 (665)
T ss_dssp             -----CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEE
T ss_pred             CCCCccCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCC--EEEEE
Confidence            45555556789999999999999999999843321000                  01222233333444444  67999


Q ss_pred             EEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           63 WDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        63 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      |||||+.+|......++..+|++++|+|+++.-... ...++..+..   .++|+++++||+|+.
T Consensus        79 iDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~q-t~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           79 LDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVG-TERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             EECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHH-HHHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             EeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchh-HHHHHHHHHH---ccCCEEEEecCCchh
Confidence            999999999988889999999999999987543222 2233333333   359999999999986

>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=99.79  E-value=7.4e-19  Score=140.29  Aligned_cols=160  Identities=16%  Similarity=0.120  Sum_probs=111.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh----hhch---hhhccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF----RSLI---PSYIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~~---~~~~~~~d   83 (208)
                      .|+|+|++|+|||||+++|.+........+.++.......+..++ ...+.+||+||....    ..+.   ...+..++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            579999999999999999997754222223333333333444443 246899999996421    1111   22356799


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      .+++++|++ ...+..+..+..++.....  ...|.++|+||+|+...  ....+....+...+++++.+||+++.++++
T Consensus       238 ~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~e  314 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPA  314 (416)
T ss_dssp             EEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHH
Confidence            999999998 5567777777666654421  24888999999998654  223444455556678999999999999999


Q ss_pred             HHHHHHHHcCCCc
Q 028507          162 LFRKIAAALPGME  174 (208)
Q Consensus       162 ~~~~l~~~~~~~~  174 (208)
                      ++++|.+.+.+..
T Consensus       315 L~~~i~~~l~~~~  327 (416)
T 1udx_A          315 LKEALHALVRSTP  327 (416)
T ss_dssp             HHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999886544

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.78  E-value=5.1e-18  Score=128.93  Aligned_cols=125  Identities=12%  Similarity=0.093  Sum_probs=85.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchh-------h-
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIP-------S-   77 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~-------~-   77 (208)
                      .+.++|+++|.+|+|||||+|+|++..+. ....+..+...........+  +.+.||||||+.++.....       . 
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~iiDTpG~~~~~~~~~~~~~~i~~~  114 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  114 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCC--eEEEEEECCCCCCCccchHHHHHHHHHH
Confidence            35799999999999999999999987753 22223333333334444454  6799999999876543222       1 


Q ss_pred             -hccCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCC--CcEEEEEeCCCCCcccCCCH
Q 028507           78 -YIRDSSVAVVVYDVASRQSFLN-TSKWIDEVRTERGSD--VIIVLVGNKTDLVEKRQVSI  134 (208)
Q Consensus        78 -~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~--~piivv~nK~D~~~~~~~~~  134 (208)
                       ....+|++++|+|++.. ++.. ...|+..+....+.+  +|+++|+||+|+.+......
T Consensus       115 ~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~  174 (270)
T 1h65_A          115 LLDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPY  174 (270)
T ss_dssp             TTTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             hhcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCCH
Confidence             13479999999998753 3333 246777776655433  69999999999976554333

>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=99.77  E-value=5.9e-18  Score=143.44  Aligned_cols=116  Identities=21%  Similarity=0.268  Sum_probs=83.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCc--C------CC----------CCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDK--F------DN----------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~--~------~~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      .+..+|+|+|++|+|||||+++|+...  +      ..          ......++......+.+.+  +.++||||||+
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~--~~i~liDTPG~   87 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDTPGH   87 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETT--EEEEEECCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECC--eEEEEEECcCc
Confidence            457899999999999999999998421  1      00          0011222333334445554  67999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      .+|...+..++..+|++|+|+|+++.........|.. +..   .++|+++++||+|+..
T Consensus        88 ~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           88 VDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             TTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             cchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            9999989999999999999999998766666555543 322   3599999999999864

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.77  E-value=1.3e-19  Score=144.28  Aligned_cols=85  Identities=18%  Similarity=0.202  Sum_probs=47.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEE---------------------EECC-EEEEEEEEEcCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTM---------------------YLED-RTVRLQLWDTAG   67 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~---------------------~~~~-~~~~~~i~D~~G   67 (208)
                      ++|+|+|.+|+|||||+|+|++.+......+.++.+......                     .+++ ..+.+.||||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            589999999999999999999877433333333333222211                     1122 246899999999


Q ss_pred             chhh----hhchh---hhccCCcEEEEEEeCCCh
Q 028507           68 QERF----RSLIP---SYIRDSSVAVVVYDVASR   94 (208)
Q Consensus        68 ~~~~----~~~~~---~~~~~~d~~i~v~d~~~~   94 (208)
                      ....    ..+..   .+++.+|++++|+|+++.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            7542    22222   457899999999999875

>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=99.77  E-value=1.5e-17  Score=136.85  Aligned_cols=115  Identities=22%  Similarity=0.208  Sum_probs=78.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc--CCC--------------------CCCCccceeeEEEEEEECCEEEEEEEEEc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK--FDN--------------------TYQATIGIDFLSKTMYLEDRTVRLQLWDT   65 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~--~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   65 (208)
                      +.++|+|+|++|+|||||+++|+...  +..                    ......++......+.+.+  +.++||||
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~--~~i~liDT   89 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHD--CLVNLLDT   89 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETT--EEEEEECC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECC--eEEEEEEC
Confidence            56899999999999999999998531  100                    0011112222233444454  67999999


Q ss_pred             CCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           66 AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        66 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      ||+.+|......++..+|++|+|+|+++..... ...++..   ....++|+++++||+|+..
T Consensus        90 PG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~---~~~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           90 PGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEV---TRLRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             CCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHH---HTTTTCCEEEEEECTTSCC
T ss_pred             CCChhHHHHHHHHHHHCCEEEEEEeCCccchHH-HHHHHHH---HHHcCCCEEEEEcCcCCcc
Confidence            999999888888899999999999998643211 1222222   2234699999999999864

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.76  E-value=6.5e-18  Score=143.25  Aligned_cols=162  Identities=11%  Similarity=0.158  Sum_probs=107.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceee----------------------------------------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDF----------------------------------------   46 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~----------------------------------------   46 (208)
                      ..++|+|+|.+|+|||||+|+|++..+. ....+++....                                        
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            4689999999999999999999987753 23334331100                                        


Q ss_pred             -------------EEEEEEECCEE--EEEEEEEcCCchhh---hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHH
Q 028507           47 -------------LSKTMYLEDRT--VRLQLWDTAGQERF---RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVR  108 (208)
Q Consensus        47 -------------~~~~~~~~~~~--~~~~i~D~~G~~~~---~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~  108 (208)
                                   ....+..+...  ..+.||||||....   ......++..+|++|+|+|++++.+......|...+.
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~  227 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIK  227 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTT
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHH
Confidence                         00011111100  25899999997653   3455667899999999999998777666655544442


Q ss_pred             HhcCCCCcEEEEEeCCCCCcccCCCHH----------HHHH-----HHHh--------cCCeEEEeecC-----------
Q 028507          109 TERGSDVIIVLVGNKTDLVEKRQVSIE----------EGEA-----KSRE--------LNVMFIETSAK-----------  154 (208)
Q Consensus       109 ~~~~~~~piivv~nK~D~~~~~~~~~~----------~~~~-----~~~~--------~~~~~~~~sa~-----------  154 (208)
                      .   .+.|+++|+||+|+........+          ....     ....        ...+++++||+           
T Consensus       228 ~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~  304 (695)
T 2j69_A          228 G---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQ  304 (695)
T ss_dssp             T---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTT
T ss_pred             h---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCch
Confidence            2   35789999999998654311111          1111     1111        12379999999           


Q ss_pred             ---CCCChHHHHHHHHHHcCC
Q 028507          155 ---AGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       155 ---~~~~i~~~~~~l~~~~~~  172 (208)
                         ++.|+.++++.|.+.+..
T Consensus       305 ~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          305 ADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             CCCTTSSHHHHHHHHHHHHHH
T ss_pred             hhhhccCHHHHHHHHHHHHHH
Confidence               999999999999887743

>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=99.76  E-value=3.1e-19  Score=137.47  Aligned_cols=160  Identities=16%  Similarity=0.236  Sum_probs=84.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC-cCCCCCC--------CccceeeEEEEEEECCEEEEEEEEEcCCc-------hhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD-KFDNTYQ--------ATIGIDFLSKTMYLEDRTVRLQLWDTAGQ-------ERF   71 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~-~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~   71 (208)
                      -.++|+|+|++|+|||||+++|.+. .++....        ++.........+...+....+++||++|.       +.+
T Consensus        17 ~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~~   96 (301)
T 2qnr_A           17 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF   96 (301)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------C
T ss_pred             CCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHHH
Confidence            4689999999999999999998875 4433221        11111111222222333467999999997       444


Q ss_pred             hhchh-------hhcc-------------CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           72 RSLIP-------SYIR-------------DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        72 ~~~~~-------~~~~-------------~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      ..+..       .++.             .+++++++.+.+. .+++.+.  ...+... ...+++++|+||.|+...++
T Consensus        97 ~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~--~~~l~~l-~~~~~iilV~~K~Dl~~~~e  172 (301)
T 2qnr_A           97 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLD--VAFMKAI-HNKVNIVPVIAKADTLTLKE  172 (301)
T ss_dssp             TTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHH--HHHHHHH-TTTSCEEEEECCGGGSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHH--HHHHHHH-HhcCCEEEEEEeCCCCCHHH
Confidence            43332       2222             2344555544332 1233322  1222222 24589999999999976543


Q ss_pred             C--CHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          132 V--SIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       132 ~--~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +  ..+++..++..++++++++||+++ +++++|..+.+.+.+
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~  214 (301)
T 2qnr_A          173 RERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKA  214 (301)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhc
Confidence            2  245777888889999999999999 999999999887743

>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=99.76  E-value=6e-19  Score=139.32  Aligned_cols=155  Identities=21%  Similarity=0.224  Sum_probs=103.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeE----------------------------------------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFL----------------------------------------   47 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~----------------------------------------   47 (208)
                      .-.+|+|+|++|+|||||+++|++..+........+....                                        
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            3459999999999999999999998763322211110000                                        


Q ss_pred             --------------EEEEEECCEEEEEEEEEcCCchhh-------------hhchhhhccCCcEEEEEEeCCChhhHHHH
Q 028507           48 --------------SKTMYLEDRTVRLQLWDTAGQERF-------------RSLIPSYIRDSSVAVVVYDVASRQSFLNT  100 (208)
Q Consensus        48 --------------~~~~~~~~~~~~~~i~D~~G~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  100 (208)
                                    ...+... ....+.+|||||...+             ..+...++..+|++|+|+|.++.+...  
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~-~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--  189 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSP-NVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--  189 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEET-TSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--
T ss_pred             HhcCCCCCcccceEEEEEeCC-CCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--
Confidence                          0001111 1135899999997765             556677899999999999876433222  


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507          101 SKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus       101 ~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      ..|+..+......+.|+++|+||+|+.+...............++.+++.+++.++.++++.+..
T Consensus       190 ~~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~  254 (360)
T 3t34_A          190 SDAIKISREVDPSGDRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDM  254 (360)
T ss_dssp             CHHHHHHHHSCTTCTTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCH
T ss_pred             HHHHHHHHHhcccCCCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCH
Confidence            23444444444456899999999999876655555555555566788999999998877655443

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.76  E-value=1.3e-18  Score=138.98  Aligned_cols=160  Identities=16%  Similarity=0.242  Sum_probs=83.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCC--------CCccceeeEEEEEEECCEEEEEEEEEcCCchhhh-------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTY--------QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR-------   72 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------   72 (208)
                      -.++|+|+|++|+|||||++.|.+..+....        .++.........+...+....+++||++|...+.       
T Consensus        30 vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~  109 (418)
T 2qag_C           30 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ  109 (418)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CH
T ss_pred             CCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHH
Confidence            3578999999999999999999987653211        1122111111112223333479999999976431       


Q ss_pred             h------------------chhhhccCCcEEEEEEeCCCh-hhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           73 S------------------LIPSYIRDSSVAVVVYDVASR-QSFLNTS-KWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        73 ~------------------~~~~~~~~~d~~i~v~d~~~~-~s~~~~~-~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .                  +.+.++.++++.+++|..+.. .+++.+. .|+..+.    ..+|+|+|+||+|+...+++
T Consensus       110 ~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~~ev  185 (418)
T 2qag_C          110 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTPEEC  185 (418)
T ss_dssp             HHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCccHHHH
Confidence            1                  112334555554555544321 2334333 4555553    36999999999999766554


Q ss_pred             CH--HHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          133 SI--EEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       133 ~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ..  .++..++..++++++++|+.++.++.++|..+...++
T Consensus       186 ~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~iP  226 (418)
T 2qag_C          186 QQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLP  226 (418)
T ss_dssp             HHHHHHHHHHHHHHTCCCCCCC-----------------CC
T ss_pred             HHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhCC
Confidence            43  5677778888999999999999999999988887765

>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=99.76  E-value=3.6e-18  Score=132.47  Aligned_cols=163  Identities=20%  Similarity=0.240  Sum_probs=98.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCC-CCCcccee---eEEE---------------------------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNT-YQATIGID---FLSK---------------------------------   49 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~-~~~~~~~~---~~~~---------------------------------   49 (208)
                      ....+|+|+|.+|+|||||+|+|++..+... ....+...   ....                                 
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREE  101 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHH
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEEEEEEeCCCcccccchhhhhhhhcccccccCCHHHHHHH
Confidence            4568999999999999999999998876221 11111000   0000                                 


Q ss_pred             ----------------------EEEECCEEEEEEEEEcCCchh-------------hhhchhhhccCCcEEEEEEeCCCh
Q 028507           50 ----------------------TMYLEDRTVRLQLWDTAGQER-------------FRSLIPSYIRDSSVAVVVYDVASR   94 (208)
Q Consensus        50 ----------------------~~~~~~~~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~   94 (208)
                                            .+... ....+.||||||...             +......++..+|++|+|+|.++.
T Consensus       102 i~~~~~~~~g~~~~~~~~~~~~~i~~~-~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~  180 (315)
T 1jwy_B          102 IIRDTDRMTGKNKGISAQPINLKIYSP-HVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANT  180 (315)
T ss_dssp             HHHHCC--------CCCCCEEEEEEET-TSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSS
T ss_pred             HHHHHHHhcCCCCCccCccEEEEEecC-CCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCc
Confidence                                  00111 114699999999753             445566778999999999997432


Q ss_pred             hhH-HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecC---C---CCChHHHHHHHH
Q 028507           95 QSF-LNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK---A---GFNIKPLFRKIA  167 (208)
Q Consensus        95 ~s~-~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~---~---~~~i~~~~~~l~  167 (208)
                      ... .....+...+   ...+.|+++|+||+|+.+...............++..++++++.   +   +.|+.++++.+.
T Consensus       181 ~~~~~~~~~i~~~~---~~~~~~~i~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~  257 (315)
T 1jwy_B          181 DLANSDALQLAKEV---DPEGKRTIGVITKLDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEI  257 (315)
T ss_dssp             CSTTCSHHHHHHHH---CSSCSSEEEEEECTTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHH
T ss_pred             chhhhHHHHHHHHh---CCCCCcEEEEEcCcccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHH
Confidence            211 1111222222   23468999999999997655422333221111222456666655   4   788999999988


Q ss_pred             HHcCCC
Q 028507          168 AALPGM  173 (208)
Q Consensus       168 ~~~~~~  173 (208)
                      ..++..
T Consensus       258 ~~~~~~  263 (315)
T 1jwy_B          258 LYFKNH  263 (315)
T ss_dssp             HHHHTC
T ss_pred             HHHhCC
Confidence            887643

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.75  E-value=3.6e-17  Score=138.66  Aligned_cols=116  Identities=22%  Similarity=0.264  Sum_probs=83.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc--CcCCC-----------C-----CCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY--DKFDN-----------T-----YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~--~~~~~-----------~-----~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      .+..+|+|+|++|+|||||+++|+.  +.+..           .     ..+..++......+.+.+  +.++||||||+
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~--~~i~liDTPG~   85 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEG--HRVNIIDTPGH   85 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETT--EEEEEECCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECC--eeEEEEECcCC
Confidence            4578999999999999999999984  22210           0     012222333334455555  67999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      .+|...+..+++.+|++|+|+|+++..+......|.. +..   .++|+++|+||+|+..
T Consensus        86 ~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           86 VDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             SSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             cchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            9998888889999999999999998666555554443 333   3589999999999864

>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=99.75  E-value=5.3e-17  Score=137.80  Aligned_cols=118  Identities=19%  Similarity=0.192  Sum_probs=82.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC--cCCCC----------------CCCccceeeEEEEEEEC-----CEEEEEEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD--KFDNT----------------YQATIGIDFLSKTMYLE-----DRTVRLQLW   63 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~--~~~~~----------------~~~~~~~~~~~~~~~~~-----~~~~~~~i~   63 (208)
                      .+..+|+|+|+.|+|||||+++|+..  .+...                .....++......+.+.     +..+.++||
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~li   87 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINII   87 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEE
Confidence            45689999999999999999999742  11110                01112222222333333     234789999


Q ss_pred             EcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           64 DTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        64 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      ||||+.+|...+..+++.+|++|+|+|+++.........|.. ..   ..++|+++++||+|+..
T Consensus        88 DTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~---~~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           88 DTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-AN---KYKVPRIAFVNKMDRMG  148 (704)
T ss_pred             eCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HH---HcCCCEEEEEeCCCccc
Confidence            999999999888999999999999999997644444333322 22   23599999999999864

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.75  E-value=1.4e-18  Score=133.94  Aligned_cols=135  Identities=18%  Similarity=0.149  Sum_probs=109.7

Q ss_pred             HHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChh-hHHHHH
Q 028507           24 SIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQ-SFLNTS  101 (208)
Q Consensus        24 tli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~  101 (208)
                      +|+.++..+.|. ..+.||.+..+. ..+..++   ++.+||+  ++++..+++.+++++|++|+|||+++++ ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688888888988 788899885443 3322222   6899999  8899999999999999999999999987 688899


Q ss_pred             HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC--CeEEEeecCCCCChHHHHHHHHHH
Q 028507          102 KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN--VMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       102 ~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      .|+..+..   .++|+++|+||+|+.+.+.+  ++...++..++  +.++++||++|.|++++|..+...
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~ge  170 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKGK  170 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSSS
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcCC
Confidence            99987765   36999999999999765432  44666777777  899999999999999999887653

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.72  E-value=3.4e-17  Score=128.72  Aligned_cols=122  Identities=18%  Similarity=0.215  Sum_probs=93.0

Q ss_pred             EEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHHhc-CCCCcE
Q 028507           49 KTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVAS----------RQSFLNTSKWIDEVRTER-GSDVII  117 (208)
Q Consensus        49 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~pi  117 (208)
                      ..+.+++  +.+.+||++|++.++..|..++++++++|||||+++          .+++.....|+..+.... ..++|+
T Consensus       194 ~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~pi  271 (362)
T 1zcb_A          194 YDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI  271 (362)
T ss_dssp             EEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEE
T ss_pred             EEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCE
Confidence            4455554  789999999999999999999999999999999998          678999888888886642 357999


Q ss_pred             EEEEeCCCCCccc----------------CCCHHHHHHHHH-----------hcCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          118 VLVGNKTDLVEKR----------------QVSIEEGEAKSR-----------ELNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       118 ivv~nK~D~~~~~----------------~~~~~~~~~~~~-----------~~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ++++||+|+.+++                ..+.+++..++.           ..++.+++|||+++.|+.++|+++.+.+
T Consensus       272 ILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i  351 (362)
T 1zcb_A          272 ILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTI  351 (362)
T ss_dssp             EEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             EEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHH
Confidence            9999999986432                256677776651           3457899999999999999999999887


Q ss_pred             CC
Q 028507          171 PG  172 (208)
Q Consensus       171 ~~  172 (208)
                      .+
T Consensus       352 ~~  353 (362)
T 1zcb_A          352 LH  353 (362)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.70  E-value=6.7e-17  Score=128.10  Aligned_cols=121  Identities=17%  Similarity=0.205  Sum_probs=97.8

Q ss_pred             EEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHHhc-CCCCcE
Q 028507           49 KTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVAS----------RQSFLNTSKWIDEVRTER-GSDVII  117 (208)
Q Consensus        49 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~pi  117 (208)
                      ..+.+++  +.+.|||++|++.++..|..++++++++|+|||+++          .++++....|+..+.... ..++|+
T Consensus       210 ~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~pi  287 (402)
T 1azs_C          210 TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISV  287 (402)
T ss_dssp             EEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCE
T ss_pred             EEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeE
Confidence            4455555  789999999999999999999999999999999998          889999999999987653 367999


Q ss_pred             EEEEeCCCCCcccC---C---------------------------CHHHHHHHH-----Hh--------cCCeEEEeecC
Q 028507          118 VLVGNKTDLVEKRQ---V---------------------------SIEEGEAKS-----RE--------LNVMFIETSAK  154 (208)
Q Consensus       118 ivv~nK~D~~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~sa~  154 (208)
                      +||+||+|+.+++.   +                           ...++..++     ..        .++.+++|||+
T Consensus       288 iLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~  367 (402)
T 1azs_C          288 ILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAV  367 (402)
T ss_dssp             EEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTT
T ss_pred             EEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEee
Confidence            99999999854322   1                           134555543     22        24577899999


Q ss_pred             CCCChHHHHHHHHHHcC
Q 028507          155 AGFNIKPLFRKIAAALP  171 (208)
Q Consensus       155 ~~~~i~~~~~~l~~~~~  171 (208)
                      ++.||+++|..+.+.+.
T Consensus       368 d~~nV~~vF~~v~~~I~  384 (402)
T 1azs_C          368 DTENIRRVFNDCRDIIQ  384 (402)
T ss_dssp             CHHHHHHHHHHHHHHHH
T ss_pred             cCcCHHHHHHHHHHHHH
Confidence            99999999999988774

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.70  E-value=3.4e-16  Score=129.35  Aligned_cols=115  Identities=17%  Similarity=0.151  Sum_probs=81.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC------------------cC----CCCCCCccceeeEEEEEEECCEEEEEEEEEc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD------------------KF----DNTYQATIGIDFLSKTMYLEDRTVRLQLWDT   65 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~------------------~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   65 (208)
                      +.-+|+|+|+.++|||||..+|+..                  .+    +.+....+++......+.+++  +.++|+||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlIDT  107 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD--RVVNLLDT  107 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT--EEEEEECC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC--EEEEEEeC
Confidence            4578999999999999999999621                  01    123334555555666777777  67999999


Q ss_pred             CCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           66 AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        66 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      |||.+|..-....++.+|++|+|+|+.+.=......-|.. ...   .++|+++++||+|...
T Consensus       108 PGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~-a~~---~~lp~i~fINK~Dr~~  166 (548)
T 3vqt_A          108 PGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDV-CRM---RATPVMTFVNKMDREA  166 (548)
T ss_dssp             CCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSCC
T ss_pred             CCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHH-HHH---hCCceEEEEecccchh
Confidence            9999999999999999999999999985322222223322 222   3599999999999853

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.69  E-value=8.8e-16  Score=120.20  Aligned_cols=146  Identities=12%  Similarity=0.083  Sum_probs=91.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCE---------------EEEEEEEEcCCchhhh-
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR---------------TVRLQLWDTAGQERFR-   72 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~-   72 (208)
                      .++|+|+|.+|+|||||+|+|++..+.....+.++++.....+.+++.               ...+.+||+||...+. 
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~   81 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCccccc
Confidence            379999999999999999999987754333333333322223334432               1469999999987643 


Q ss_pred             ---hc---hhhhccCCcEEEEEEeCCCh----------hhHHHHHHHHHHH-----------------------------
Q 028507           73 ---SL---IPSYIRDSSVAVVVYDVASR----------QSFLNTSKWIDEV-----------------------------  107 (208)
Q Consensus        73 ---~~---~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i-----------------------------  107 (208)
                         .+   ...+++.+|++++|+|+++.          +++.++..+..++                             
T Consensus        82 ~~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~  161 (363)
T 1jal_A           82 KGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFE  161 (363)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHH
Confidence               22   23347899999999999852          2333333222211                             


Q ss_pred             -----------HH-------------------h-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecC
Q 028507          108 -----------RT-------------------E-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAK  154 (208)
Q Consensus       108 -----------~~-------------------~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  154 (208)
                                 ..                   + ....+|+++++|+.|..-........+..++...+.+++++||+
T Consensus       162 ~~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~  239 (363)
T 1jal_A          162 LSVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAA  239 (363)
T ss_dssp             HHHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHH
T ss_pred             HHHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechH
Confidence                       00                   0 11248999999999853212233566677777788999999965

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.69  E-value=7.8e-17  Score=118.69  Aligned_cols=155  Identities=17%  Similarity=0.141  Sum_probs=95.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCC------CCccce--------eeEEEEEEE----------------CCEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTY------QATIGI--------DFLSKTMYL----------------EDRTV   58 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~------~~~~~~--------~~~~~~~~~----------------~~~~~   58 (208)
                      ..+|+|+|.+|+|||||+++|.........      .+..+.        ......+..                .....
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSDC  109 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTTC
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCCC
Confidence            478999999999999999999865321110      111000        000011111                00124


Q ss_pred             EEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHH
Q 028507           59 RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGE  138 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~  138 (208)
                      .+.+|||+|......   .+....+.+++|+|+++...  ....+...   .   +.|+++|+||+|+.+.......+..
T Consensus       110 d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~--~~~~~~~~---~---~~~~iiv~NK~Dl~~~~~~~~~~~~  178 (221)
T 2wsm_A          110 DLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDD--VVEKHPEI---F---RVADLIVINKVALAEAVGADVEKMK  178 (221)
T ss_dssp             SEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTT--HHHHCHHH---H---HTCSEEEEECGGGHHHHTCCHHHHH
T ss_pred             CEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcch--hhhhhhhh---h---hcCCEEEEecccCCcchhhHHHHHH
Confidence            688999998511111   11125688999999875431  11111111   1   2788999999998654444566666


Q ss_pred             HHHHhc--CCeEEEeecCCCCChHHHHHHHHHHcCCCc
Q 028507          139 AKSREL--NVMFIETSAKAGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       139 ~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  174 (208)
                      ..+...  +++++++|+++|.|+.++|++|.+.+....
T Consensus       179 ~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~~  216 (221)
T 2wsm_A          179 ADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVHS  216 (221)
T ss_dssp             HHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC---
T ss_pred             HHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHHH
Confidence            666654  468999999999999999999998876543

>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=99.67  E-value=2.5e-17  Score=129.71  Aligned_cols=158  Identities=18%  Similarity=0.223  Sum_probs=94.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCC------CCcc----------------------cee-------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTY------QATI----------------------GID-------------   45 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~------~~~~----------------------~~~-------------   45 (208)
                      ...++|+|+|.+|+|||||+|+|++..+....      .|+.                      +.+             
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            45689999999999999999999998763211      1210                      000             


Q ss_pred             --------e--EEEEEEECCEEEEEEEEEcCCch-------------hhhhchhhhccCCc-EEEEEEeCCChhhHHHHH
Q 028507           46 --------F--LSKTMYLEDRTVRLQLWDTAGQE-------------RFRSLIPSYIRDSS-VAVVVYDVASRQSFLNTS  101 (208)
Q Consensus        46 --------~--~~~~~~~~~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~  101 (208)
                              .  ....+... ....+.||||||..             .+..+...++...+ ++++|.|++..  +... 
T Consensus       109 ~g~~~gi~~~~~~~~i~~~-~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~--~~~~-  184 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSD--LANS-  184 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEET-TCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSC--GGGC-
T ss_pred             cccCCCcccCceEEEEecC-CCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCc--cchh-
Confidence                    0  00011111 12469999999953             34455666666555 55556676542  2221 


Q ss_pred             HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHH--HHhcCC-eEEEeecCCCCChHHHHHHHHH
Q 028507          102 KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAK--SRELNV-MFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus       102 ~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~--~~~~~~-~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      .++..+......+.|+++|+||+|+.+............  ....++ .++.+||+++.|+.++++++..
T Consensus       185 ~~~~i~~~~~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          185 DALKVAKEVDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHHHHHCTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHhCcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            122223333335689999999999976543222221110  111233 6788999999999999998876

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.63  E-value=5.3e-18  Score=125.41  Aligned_cols=153  Identities=18%  Similarity=0.227  Sum_probs=91.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeE------------EEEEEEC-CEE-----------------
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFL------------SKTMYLE-DRT-----------------   57 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~------------~~~~~~~-~~~-----------------   57 (208)
                      +.++|+|+|.+|+|||||+++|+...+...+.++...++.            ...+.++ +..                 
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~  116 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNL  116 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhc
Confidence            4589999999999999999999977654433333332221            1111111 100                 


Q ss_pred             --EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHH
Q 028507           58 --VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIE  135 (208)
Q Consensus        58 --~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~  135 (208)
                        ..+.++|++|.-...   ..+-...+..+.++|.........  .. ...   .  ..|.++|+||+|+.+.......
T Consensus       117 ~~~d~~~id~~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~~--~~-~~~---~--~~~~iiv~NK~Dl~~~~~~~~~  185 (226)
T 2hf9_A          117 DEIDLLFIENVGNLICP---ADFDLGTHKRIVVISTTEGDDTIE--KH-PGI---M--KTADLIVINKIDLADAVGADIK  185 (226)
T ss_dssp             GGCSEEEEECCSCSSGG---GGCCCSCSEEEEEEEGGGCTTTTT--TC-HHH---H--TTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCCCEEEEeCCCCccCc---chhhhccCcEEEEEecCcchhhHh--hh-hhH---h--hcCCEEEEeccccCchhHHHHH
Confidence              134555555521000   011122344566676532111000  00 011   1  2678999999998765545667


Q ss_pred             HHHHHHHhc--CCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          136 EGEAKSREL--NVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       136 ~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      +...++..+  +++++++||++|.|++++|++|.+.+.
T Consensus       186 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  223 (226)
T 2hf9_A          186 KMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVK  223 (226)
T ss_dssp             HHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHH
Confidence            777777654  579999999999999999999988764

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.63  E-value=3.5e-16  Score=129.39  Aligned_cols=121  Identities=21%  Similarity=0.225  Sum_probs=81.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCC---CCCCCccceeeEEEE---------------------------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFD---NTYQATIGIDFLSKT---------------------------------   50 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~---~~~~~~~~~~~~~~~---------------------------------   50 (208)
                      ...++|+|+|.+|+|||||+|+|++..+.   ....+++........                                 
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~~  142 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLNR  142 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCCTT
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhccccccc
Confidence            45689999999999999999999998763   233333321100000                                 


Q ss_pred             ---EEECCE-EEEEEEEEcCCchh-----------hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q 028507           51 ---MYLEDR-TVRLQLWDTAGQER-----------FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDV  115 (208)
Q Consensus        51 ---~~~~~~-~~~~~i~D~~G~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~  115 (208)
                         ..+.+. ...+.||||||...           +......++..+|++|+|+|+++.........++..+..   .+.
T Consensus       143 ~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~~~  219 (550)
T 2qpt_A          143 FMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---HED  219 (550)
T ss_dssp             EEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---CGG
T ss_pred             ceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---cCC
Confidence               000000 02589999999764           445566678899999999999875444445555555432   348


Q ss_pred             cEEEEEeCCCCCccc
Q 028507          116 IIVLVGNKTDLVEKR  130 (208)
Q Consensus       116 piivv~nK~D~~~~~  130 (208)
                      |+++|+||+|+....
T Consensus       220 pvilVlNK~Dl~~~~  234 (550)
T 2qpt_A          220 KIRVVLNKADMVETQ  234 (550)
T ss_dssp             GEEEEEECGGGSCHH
T ss_pred             CEEEEEECCCccCHH
Confidence            899999999987543

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.62  E-value=7.7e-15  Score=115.46  Aligned_cols=149  Identities=15%  Similarity=0.113  Sum_probs=91.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC-------------------EEEEEEEEEcCCchh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED-------------------RTVRLQLWDTAGQER   70 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~i~D~~G~~~   70 (208)
                      ++|+++|.+|+|||||+++|++........+..+++.......+.+                   ....+.+||+||...
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            6899999999999999999997654333333323222222222221                   224699999999875


Q ss_pred             hh-------hchhhhccCCcEEEEEEeCCCh----------hhHHHHHHHHHHH--------------------------
Q 028507           71 FR-------SLIPSYIRDSSVAVVVYDVASR----------QSFLNTSKWIDEV--------------------------  107 (208)
Q Consensus        71 ~~-------~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i--------------------------  107 (208)
                      ..       ......++.+|++++|+|+++.          +.+..+..+..++                          
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~~~~~~~~~~~~~~~~  161 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERRLERLRKEARADRERL  161 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGH
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHHHHHHHhhhccchhHH
Confidence            42       1223357899999999999851          2222221111111                          


Q ss_pred             ---------HHh-----------------------c-CCCCcEEEEEeCCCC--Ccc-cCCCHHHHHHHHHhcCCeEEEe
Q 028507          108 ---------RTE-----------------------R-GSDVIIVLVGNKTDL--VEK-RQVSIEEGEAKSRELNVMFIET  151 (208)
Q Consensus       108 ---------~~~-----------------------~-~~~~piivv~nK~D~--~~~-~~~~~~~~~~~~~~~~~~~~~~  151 (208)
                               ...                       . ...+|+++++|+.|.  .+. +......+..++...+++++++
T Consensus       162 ~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~i  241 (368)
T 2dby_A          162 PLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVV  241 (368)
T ss_dssp             HHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEE
T ss_pred             HHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEe
Confidence                     000                       0 123799999999974  222 1233566777788888999999


Q ss_pred             ecCCCCC
Q 028507          152 SAKAGFN  158 (208)
Q Consensus       152 sa~~~~~  158 (208)
                      ||+...+
T Consensus       242 SAk~E~e  248 (368)
T 2dby_A          242 SARLEAE  248 (368)
T ss_dssp             CHHHHHH
T ss_pred             echhHHH
Confidence            9887433

>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=99.62  E-value=1.6e-16  Score=125.15  Aligned_cols=104  Identities=16%  Similarity=0.120  Sum_probs=69.1

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH--H
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI--E  135 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~--~  135 (208)
                      +.+.||||||...   .....+..+|++|+|+|....+....+..   .+     ...|+++|+||+|+........  .
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~---~~-----~~~p~ivVlNK~Dl~~~~~~~~~~~  240 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKK---GV-----LELADIVVVNKADGEHHKEARLAAR  240 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCT---TS-----GGGCSEEEEECCCGGGHHHHHHHHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHH---hH-----hhcCCEEEEECCCCcChhHHHHHHH
Confidence            5699999999433   22334588999999999875443322211   01     2368899999999864322111  1


Q ss_pred             HHHHHHHh-------cCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          136 EGEAKSRE-------LNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       136 ~~~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +.......       ++.+++++||++|.|+++++++|.+.+..
T Consensus       241 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          241 ELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            11211111       24689999999999999999999988754

>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=99.62  E-value=1.2e-15  Score=131.86  Aligned_cols=116  Identities=18%  Similarity=0.255  Sum_probs=83.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc------------CC----CCCCCccceeeEEEEEEE--------------CCEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK------------FD----NTYQATIGIDFLSKTMYL--------------EDRT   57 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~------------~~----~~~~~~~~~~~~~~~~~~--------------~~~~   57 (208)
                      +..||+|+|++|+|||||+++|+...            +.    .+..+..++......+.+              ++..
T Consensus        18 ~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~   97 (842)
T 1n0u_A           18 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   97 (842)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCCC
Confidence            45799999999999999999998541            10    011111222222222222              3346


Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      +.++||||||+.+|...+..+++.+|++|+|+|+++..++.....|.....    .++|+++++||+|+.
T Consensus        98 ~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           98 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             ceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEECCCcc
Confidence            889999999999999999999999999999999998766666555544332    358999999999986

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.60  E-value=2.6e-14  Score=112.52  Aligned_cols=153  Identities=12%  Similarity=0.102  Sum_probs=103.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-------hhchhhhccC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-------RSLIPSYIRD   81 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~   81 (208)
                      ..+|+|||.||||||||+|+|++.+......+.++.+.....+.+.+  .++.++|+||...-       .......++.
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~  149 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAVART  149 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHHHHh
Confidence            36899999999999999999998877666778888888888888888  56999999996431       1122345789


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCc--------ccCCCHHHHHHHHHhcCCeEEEe
Q 028507           82 SSVAVVVYDVASRQSFLNTSKWIDEVRTER--GSDVIIVLVGNKTDLVE--------KRQVSIEEGEAKSRELNVMFIET  151 (208)
Q Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D~~~--------~~~~~~~~~~~~~~~~~~~~~~~  151 (208)
                      +|++++|+|+++|.  ........++....  -...|.++++||.|...        ......++.......+.+..-++
T Consensus       150 ad~il~vvD~~~p~--~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kpv  227 (376)
T 4a9a_A          150 CNLLFIILDVNKPL--HHKQIIEKELEGVGIRLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAEI  227 (376)
T ss_dssp             CSEEEEEEETTSHH--HHHHHHHHHHHHTTEEETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEEE
T ss_pred             cCccccccccCccH--HHHHHHHHHHHHhhHhhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCCe
Confidence            99999999999873  33333333333221  13467788889999632        23456677777776666532223


Q ss_pred             ecCCCCChHHHHHH
Q 028507          152 SAKAGFNIKPLFRK  165 (208)
Q Consensus       152 sa~~~~~i~~~~~~  165 (208)
                      -...+...+++.+.
T Consensus       228 ~~~~nv~eddl~d~  241 (376)
T 4a9a_A          228 AFRCDATVDDLIDV  241 (376)
T ss_dssp             EECSCCCHHHHHHH
T ss_pred             eecccCCHHHHHHH
Confidence            33344455555443

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.58  E-value=5.5e-14  Score=119.73  Aligned_cols=116  Identities=20%  Similarity=0.207  Sum_probs=78.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC--------cC----------CCCCCCccceeeEEEEEEECC-----EEEEEEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD--------KF----------DNTYQATIGIDFLSKTMYLED-----RTVRLQLWD   64 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~--------~~----------~~~~~~~~~~~~~~~~~~~~~-----~~~~~~i~D   64 (208)
                      +--||+|+|+.++|||||..+|+..        ..          ..+..+.+++......+.+.+     +.+.++++|
T Consensus        12 ~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlID   91 (709)
T 4fn5_A           12 RYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVID   91 (709)
T ss_dssp             GEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEEC
T ss_pred             HCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEe
Confidence            4468999999999999999998721        11          112233344444445555532     358899999


Q ss_pred             cCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           65 TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        65 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      ||||.+|..-....++-+|++|+|+|+.+.=......-|.+...    .++|+++++||+|..
T Consensus        92 TPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~----~~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           92 TPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANK----YGVPRIVYVNKMDRQ  150 (709)
T ss_dssp             CCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH----HTCCEEEEEECSSST
T ss_pred             CCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHH----cCCCeEEEEcccccc
Confidence            99999999999999999999999999984322222223333222    249999999999974

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.57  E-value=8.8e-16  Score=129.18  Aligned_cols=113  Identities=16%  Similarity=0.196  Sum_probs=77.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc--CcCC------C----------CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY--DKFD------N----------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~--~~~~------~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      .||+|+|+.++|||||..+|+.  +...      .          +....+++......+.+++  +.++|+|||||.+|
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlIDTPGH~DF   80 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN--TKVNIIDTPGHMDF   80 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSS--CBCCCEECCCSSST
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECC--EEEEEEECCCcHHH
Confidence            5799999999999999999872  2111      0          0111233333334444554  67999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      .......++.+|++|+|+|+.+.=......-|.. ...+   ++|.++++||+|...
T Consensus        81 ~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~-a~~~---~lp~i~~INKmDr~~  133 (638)
T 3j25_A           81 LAEVYRSLSVLDGAILLISAKDGVQAQTRILFHA-LRKM---GIPTIFFINKIDQNG  133 (638)
T ss_dssp             HHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHH-HHHH---TCSCEECCEECCSSS
T ss_pred             HHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHH-HHHc---CCCeEEEEecccccc
Confidence            9999999999999999999984311122222222 2222   488899999999753

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.55  E-value=6.2e-16  Score=121.37  Aligned_cols=103  Identities=14%  Similarity=0.074  Sum_probs=62.0

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IE  135 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~  135 (208)
                      +.+.|+||+|....   .......+|++++|+|++.++....+..   .+     ...|.++|+||+|+.+.....  ..
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~~~~~~  235 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPARRIQA  235 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHHHHHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhHHHHHH
Confidence            46899999995421   2334678999999999986533221111   11     136778899999986422110  01


Q ss_pred             HHHHHHH-------hcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          136 EGEAKSR-------ELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       136 ~~~~~~~-------~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      +......       .++.+++.+|++++.|+++++++|.+.+.
T Consensus       236 ~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          236 EYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             HHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence            1111111       12457899999999999999999988764

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.54  E-value=3.6e-14  Score=107.00  Aligned_cols=109  Identities=17%  Similarity=0.056  Sum_probs=68.0

Q ss_pred             EEEEEEEcCCchhhhhchh------hhccCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           58 VRLQLWDTAGQERFRSLIP------SYIRDSSVAVVVYDVAS---RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~------~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      +.+.||||||.........      ..+.. +++|+++|+..   +..+.....+....  ....++|+++|+||+|+..
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~--~~~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLI--DLRLGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHH--HHHHTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHH--hcccCCCeEEEEecccccc
Confidence            4699999999876543221      23455 88888998753   22222221111111  1113489999999999865


Q ss_pred             ccCCCHHHHHH----------------------------HHHhcC--CeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          129 KRQVSIEEGEA----------------------------KSRELN--VMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       129 ~~~~~~~~~~~----------------------------~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ..+.  .+...                            .+..++  .+++++||+++.|+++++++|.+.+.
T Consensus       186 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          186 EEEK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HHHH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            4321  11111                            123333  48999999999999999999988764

>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=99.51  E-value=3.4e-14  Score=120.38  Aligned_cols=159  Identities=19%  Similarity=0.208  Sum_probs=97.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCcccee----------------------------------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGID----------------------------------------   45 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~----------------------------------------   45 (208)
                      ....+|+|+|.+++|||||+|+|++..+ +.....++...                                        
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            4567999999999999999999998776 22222111100                                        


Q ss_pred             ----------eEEEEEEECCEEEEEEEEEcCCchh-------------hhhchhhhc-cCCcEEEEEEeCCChhhHHHHH
Q 028507           46 ----------FLSKTMYLEDRTVRLQLWDTAGQER-------------FRSLIPSYI-RDSSVAVVVYDVASRQSFLNTS  101 (208)
Q Consensus        46 ----------~~~~~~~~~~~~~~~~i~D~~G~~~-------------~~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~~  101 (208)
                                .....+...+ ...+.|+||||...             +..+...++ ..+|++++|+|++.........
T Consensus       129 ~g~~~~is~~~i~l~I~~P~-~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l  207 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  207 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETT-CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHH
T ss_pred             cCCCCcccccceEEEEecCC-CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHH
Confidence                      0011111111 12488999999543             222333344 5789999999998643222222


Q ss_pred             HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH--hcCC-eEEEeecCCCCChHHHHHHHHHH
Q 028507          102 KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR--ELNV-MFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       102 ~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~--~~~~-~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      .++..+.   ..+.|+++|+||+|+.+..............  ..++ +++.+||++|.|++++++.+...
T Consensus       208 ~ll~~L~---~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          208 KIAKEVD---PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             HHHHHHC---TTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             HHHHHHH---hcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            2333332   3458999999999998655443221110000  1232 67889999999999999998863

>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=99.51  E-value=1.4e-14  Score=113.40  Aligned_cols=103  Identities=17%  Similarity=0.106  Sum_probs=65.3

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH--H
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI--E  135 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~--~  135 (208)
                      +.+.||||||.......   ....+|++++|+|++..+.+..+..   ..     .+.|.++|+||+|+........  .
T Consensus       149 ~~i~liDTpG~~~~~~~---~~~~aD~vl~Vvd~~~~~~~~~l~~---~~-----~~~p~ivv~NK~Dl~~~~~~~~~~~  217 (341)
T 2p67_A          149 YDVVIVETVGVGQSETE---VARMVDCFISLQIAGGGDDLQGIKK---GL-----MEVADLIVINKDDGDNHTNVAIARH  217 (341)
T ss_dssp             CSEEEEEEECCTTHHHH---HHTTCSEEEEEECC------CCCCH---HH-----HHHCSEEEECCCCTTCHHHHHHHHH
T ss_pred             CCEEEEeCCCccchHHH---HHHhCCEEEEEEeCCccHHHHHHHH---hh-----hcccCEEEEECCCCCChHHHHHHHH
Confidence            57999999997654332   4589999999999975533221111   11     1267789999999865322111  1


Q ss_pred             HHHHHHHhc-------CCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          136 EGEAKSREL-------NVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       136 ~~~~~~~~~-------~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      +........       ..+++++||++|.|+++++++|.+.+.
T Consensus       218 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          218 MYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            222211121       357899999999999999999988764

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.46  E-value=2e-13  Score=105.11  Aligned_cols=99  Identities=20%  Similarity=0.174  Sum_probs=80.6

Q ss_pred             chhhhhchhhhccCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-HHHHHHHHHhcC
Q 028507           68 QERFRSLIPSYIRDSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-IEEGEAKSRELN  145 (208)
Q Consensus        68 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-~~~~~~~~~~~~  145 (208)
                      ++++..+.+.++.++|++++|+|+++|. ++..+..|+..+..   .++|+++|+||+|+.+...+. .++...++...+
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g  142 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAG  142 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCC
Confidence            5677888888999999999999999986 88888999887654   459999999999997654222 344555666778


Q ss_pred             CeEEEeecCCCCChHHHHHHHHHH
Q 028507          146 VMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       146 ~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      ++++++||+++.|++++++.+...
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l~G~  166 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYLEGF  166 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHTTTC
T ss_pred             CeEEEEECCCCCCHHHHHhhccCc
Confidence            999999999999999999877653

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.39  E-value=3.2e-13  Score=106.71  Aligned_cols=88  Identities=16%  Similarity=0.100  Sum_probs=52.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCE---------------EEEEEEEEcCCchhhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR---------------TVRLQLWDTAGQERFR   72 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~   72 (208)
                      ..++|+|+|.+|+|||||+|+|++..+.....++++++.....+.+.+.               ...+.+||+||.....
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            4589999999999999999999988765555566655555555555432               1259999999987644


Q ss_pred             h-------chhhhccCCcEEEEEEeCCChh
Q 028507           73 S-------LIPSYIRDSSVAVVVYDVASRQ   95 (208)
Q Consensus        73 ~-------~~~~~~~~~d~~i~v~d~~~~~   95 (208)
                      .       .+..+++.+|++++|+|+++.+
T Consensus       101 s~~~glg~~~l~~ir~aD~Il~VvD~~~~~  130 (396)
T 2ohf_A          101 HNGQGLGNAFLSHISACDGIFHLTRAFEDD  130 (396)
T ss_dssp             ------CCHHHHHHHTSSSEEEEEEC----
T ss_pred             chhhHHHHHHHHHHHhcCeEEEEEecCCCc
Confidence            3       3456688999999999998543

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.38  E-value=7.7e-13  Score=103.27  Aligned_cols=103  Identities=12%  Similarity=0.093  Sum_probs=62.4

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEG  137 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~  137 (208)
                      +.+.|+||+|.....   ......+|.+++|+|....+....+...   +.     ..+.++++||+|+...........
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~---i~-----~~~~ivvlNK~Dl~~~~~~s~~~~  216 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKG---IF-----ELADMIAVNKADDGDGERRASAAA  216 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTT---HH-----HHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHH---Hh-----ccccEEEEEchhccCchhHHHHHH
Confidence            569999999965322   1234689999999998644322111111   11     134467779999754222211122


Q ss_pred             HHHHHh----------cCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          138 EAKSRE----------LNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       138 ~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      +.+...          ++.+++.+|++++.|++++++.|.+.+.
T Consensus       217 ~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          217 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            222211          1357899999999999999999988764

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.37  E-value=2.3e-11  Score=96.38  Aligned_cols=86  Identities=17%  Similarity=0.194  Sum_probs=63.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCE---------------EEEEEEEEcCCchh-
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDR---------------TVRLQLWDTAGQER-   70 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-   70 (208)
                      ...+++|+|++|+|||||+|+|++... .....|+++++.....+.+.+.               ...+.+||+||... 
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            357999999999999999999998776 5555666666655555555541               13589999999543 


Q ss_pred             ------hhhchhhhccCCcEEEEEEeCCC
Q 028507           71 ------FRSLIPSYIRDSSVAVVVYDVAS   93 (208)
Q Consensus        71 ------~~~~~~~~~~~~d~~i~v~d~~~   93 (208)
                            +...+...++.+|++++|+|+.+
T Consensus        99 ~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           99 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                  22234445789999999999863

>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=99.28  E-value=6.1e-12  Score=90.29  Aligned_cols=104  Identities=7%  Similarity=-0.063  Sum_probs=70.1

Q ss_pred             CCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHH---hc--CCCCcEEEEEeCC-CCCcccCCCHHHHHH
Q 028507           66 AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRT---ER--GSDVIIVLVGNKT-DLVEKRQVSIEEGEA  139 (208)
Q Consensus        66 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~---~~--~~~~piivv~nK~-D~~~~~~~~~~~~~~  139 (208)
                      +|+..++.+|+.|+.++|++|||+|++|.+.++ ....+..+..   ..  ..++|++|++||. |+.  ...+..++..
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp--~Ams~~EI~e  186 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYLAH  186 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTS--CBCCHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCcc--CCCCHHHHHH
Confidence            378889999999999999999999999875543 3333322221   11  2568999999985 664  3345555544


Q ss_pred             HHHh----cCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          140 KSRE----LNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       140 ~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ....    ..+.+..|||.+|+|+.+.++||.+.+..
T Consensus       187 ~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          187 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTT
T ss_pred             HcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHh
Confidence            4332    34689999999999999999999887753

>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=99.16  E-value=1.3e-10  Score=87.34  Aligned_cols=106  Identities=7%  Similarity=-0.078  Sum_probs=74.6

Q ss_pred             cCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHH---HHH-Hh-cCCCCcEEEEEeC-CCCCcccCCCHHHHH
Q 028507           65 TAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWID---EVR-TE-RGSDVIIVLVGNK-TDLVEKRQVSIEEGE  138 (208)
Q Consensus        65 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~---~i~-~~-~~~~~piivv~nK-~D~~~~~~~~~~~~~  138 (208)
                      .+|+..++.+|+.|+.++|++|||+|++|.+.++ ....+.   .+. .. ...++|++|++|| .|+..  ..+..++.
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~--Ams~~EI~  270 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLA  270 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSC--BCCHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccC--CCCHHHHH
Confidence            3577889999999999999999999999887544 222222   222 22 1256999999996 57743  34455554


Q ss_pred             HHHHh----cCCeEEEeecCCCCChHHHHHHHHHHcCCC
Q 028507          139 AKSRE----LNVMFIETSAKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       139 ~~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  173 (208)
                      .....    ..+.+..|||.+|+|+.+.++||.+.+...
T Consensus       271 e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          271 HELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             HHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             HHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence            44322    345899999999999999999999988543

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.03  E-value=2.1e-11  Score=96.35  Aligned_cols=141  Identities=16%  Similarity=0.188  Sum_probs=83.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC------cCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhch-------
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD------KFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-------   75 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-------   75 (208)
                      ..+++++|.+|+|||||+|+|++.      .......+.++.  ......+..   .+.++||||......+.       
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~--~~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~~  236 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTL--DMIEIPLES---GATLYDTPGIINHHQMAHFVDARD  236 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSC--EEEEEECST---TCEEEECCSCCCCSSGGGGSCTTT
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEE--eeEEEEeCC---CeEEEeCCCcCcHHHHHHHHhHHH
Confidence            468999999999999999999975      222223333332  233333433   27999999954322111       


Q ss_pred             hhhc---cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEee
Q 028507           76 PSYI---RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETS  152 (208)
Q Consensus        76 ~~~~---~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  152 (208)
                      ...+   ...+.++++++....-.+..+..    +......+.|+++++||.|........ .....+.+..+..+...+
T Consensus       237 l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~~-~~~~~~~~~~g~~l~p~~  311 (369)
T 3ec1_A          237 LKIITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKLE-KADSLYANQLGELLSPPS  311 (369)
T ss_dssp             HHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEGG-GHHHHHHHHBTTTBCSSC
T ss_pred             HHHHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccHH-HHHHHHHHhcCCccCCCC
Confidence            1112   67899999999842110111111    222233568999999999987655443 333455566676666666


Q ss_pred             cCCCCCh
Q 028507          153 AKAGFNI  159 (208)
Q Consensus       153 a~~~~~i  159 (208)
                      +.+.+++
T Consensus       312 ~~~~~~~  318 (369)
T 3ec1_A          312 KRYAAEF  318 (369)
T ss_dssp             GGGTTTC
T ss_pred             chhhhhc
Confidence            5554443

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.02  E-value=1e-09  Score=87.58  Aligned_cols=139  Identities=14%  Similarity=0.210  Sum_probs=71.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCC----CCccceeeEEEEEEECCEEEEEEEEEcCCchhh--------------
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTY----QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF--------------   71 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------------   71 (208)
                      ++++|+|++|+|||||++.|.+..+....    .+..............+....++++|++|....              
T Consensus        43 ~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~i  122 (427)
T 2qag_B           43 FNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEFI  122 (427)
T ss_dssp             EEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHHH
Confidence            56999999999999999999987543211    111111111111222222236899999985321              


Q ss_pred             ----hhchhhh---------ccC--CcE-EEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--
Q 028507           72 ----RSLIPSY---------IRD--SSV-AVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--  133 (208)
Q Consensus        72 ----~~~~~~~---------~~~--~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--  133 (208)
                          ......+         +..  +|+ ++|+.|...+-+..+    + .+.......+|+|+|.||+|.....+..  
T Consensus       123 ~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D----i-eilk~L~~~~~vI~Vi~KtD~Lt~~E~~~l  197 (427)
T 2qag_B          123 DAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD----L-VTMKKLDSKVNIIPIIAKADAISKSELTKF  197 (427)
T ss_dssp             HHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH----H-HHHHHTCSCSEEEEEESCGGGSCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH----H-HHHHHHhhCCCEEEEEcchhccchHHHHHH
Confidence                0011111         112  233 555666653322222    1 2222223569999999999987544321  


Q ss_pred             HHHHHHHHHhcCCeEEEeec
Q 028507          134 IEEGEAKSRELNVMFIETSA  153 (208)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~sa  153 (208)
                      ...+.......|+.++.+|.
T Consensus       198 ~~~I~~~L~~~gi~I~~is~  217 (427)
T 2qag_B          198 KIKITSELVSNGVQIYQFPT  217 (427)
T ss_dssp             HHHHHHHHBTTBCCCCCCC-
T ss_pred             HHHHHHHHHHcCCcEEecCC
Confidence            12223223445777777774

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.00  E-value=1.1e-09  Score=86.43  Aligned_cols=97  Identities=22%  Similarity=0.321  Sum_probs=74.0

Q ss_pred             CchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHH----HH
Q 028507           67 GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAK----SR  142 (208)
Q Consensus        67 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~----~~  142 (208)
                      ..++|..+...+.+..+++++|+|++++.     ..|...+....+ ++|+++|+||+|+.+.. ...++...+    +.
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~-~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVG-NNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSS-SSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhC-CCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHH
Confidence            35788888888889999999999999863     345555555543 68999999999997543 233333333    55


Q ss_pred             hcCC---eEEEeecCCCCChHHHHHHHHHHc
Q 028507          143 ELNV---MFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       143 ~~~~---~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ..++   .++.+||++|.|++++++.|.+..
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            6677   799999999999999999997754

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.97  E-value=5.6e-10  Score=91.12  Aligned_cols=151  Identities=19%  Similarity=0.177  Sum_probs=83.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh------cCcC---CC-CCCCcc-----------ceeeEEEEEE-------------E
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM------YDKF---DN-TYQATI-----------GIDFLSKTMY-------------L   53 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~------~~~~---~~-~~~~~~-----------~~~~~~~~~~-------------~   53 (208)
                      +...|+|+|.+|+||||+++.|.      +.+.   .. .+.+..           ++++......             .
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~  179 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF  179 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999988      3322   00 011100           1111110000             0


Q ss_pred             CCEEEEEEEEEcCCchhhhh-chhh---h--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCCC
Q 028507           54 EDRTVRLQLWDTAGQERFRS-LIPS---Y--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVII-VLVGNKTDL  126 (208)
Q Consensus        54 ~~~~~~~~i~D~~G~~~~~~-~~~~---~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~nK~D~  126 (208)
                      ....+.+.|+||||...... +...   .  +..+|.+++|+|++......   .....+...    +|+ .+|+||+|.
T Consensus       180 ~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~---~~a~~~~~~----~~i~gvVlNK~D~  252 (504)
T 2j37_W          180 KNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE---AQAKAFKDK----VDVASVIVTKLDG  252 (504)
T ss_dssp             HHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH---HHHHHHHHH----HCCCCEEEECTTS
T ss_pred             HHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH---HHHHHHHhh----cCceEEEEeCCcc
Confidence            00225699999999653211 1111   1  23789999999998643211   122223221    554 788899997


Q ss_pred             CcccCCCHHHHHHHHHhcCCeE------------------EEeecCCCCC-hHHHHHHHHHH
Q 028507          127 VEKRQVSIEEGEAKSRELNVMF------------------IETSAKAGFN-IKPLFRKIAAA  169 (208)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~------------------~~~sa~~~~~-i~~~~~~l~~~  169 (208)
                      ......    +.......+.++                  +.+|+..|.+ +.++++++.+.
T Consensus       253 ~~~~g~----~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          253 HAKGGG----ALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CCCCTH----HHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             ccchHH----HHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            533221    122233344433                  3467888988 99999998876

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.96  E-value=3.4e-11  Score=95.08  Aligned_cols=135  Identities=12%  Similarity=0.131  Sum_probs=76.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC-------CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhch----h-
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD-------NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI----P-   76 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~----~-   76 (208)
                      ..+++++|.+|+|||||+|+|++....       ....+.+  +.......+...   +.++||||......+.    . 
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gt--T~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~  234 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGT--TLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQ  234 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC------CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCe--ecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHH
Confidence            468999999999999999999976321       1222222  222333334332   8999999964332111    1 


Q ss_pred             ---hh--ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEe
Q 028507           77 ---SY--IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIET  151 (208)
Q Consensus        77 ---~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (208)
                         .+  ....+..+++++....-.+..+..    +........|+++++||.|....... ......+.+..|..+...
T Consensus       235 ~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~  309 (368)
T 3h2y_A          235 SLKLITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPP  309 (368)
T ss_dssp             HHHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSS
T ss_pred             HHHHhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCC
Confidence               11  356788888888742110111110    11222356899999999998765543 333344555666554444


Q ss_pred             ec
Q 028507          152 SA  153 (208)
Q Consensus       152 sa  153 (208)
                      ++
T Consensus       310 ~~  311 (368)
T 3h2y_A          310 TP  311 (368)
T ss_dssp             CH
T ss_pred             ch
Confidence            43

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.95  E-value=8.5e-10  Score=83.43  Aligned_cols=138  Identities=13%  Similarity=0.174  Sum_probs=71.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCC--------C-CccceeeEEEEEEECCEEEEEEEEEcCCchhhh-------
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTY--------Q-ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR-------   72 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~--------~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------   72 (208)
                      +++++|+|++|+|||||++.|.+...+...        . .+.............+-...++++|++|.....       
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            478999999999999999999865432211        0 010000000000111111268999999842100       


Q ss_pred             ---hch------------------hhhccCCcEEEEEEeCCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           73 ---SLI------------------PSYIRDSSVAVVVYDVAS-RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        73 ---~~~------------------~~~~~~~d~~i~v~d~~~-~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                         ...                  +-.+..+++.++++|... +-.... ...+..+.   .. +++++|++|.|.....
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~---~~-~~vI~Vi~K~D~lt~~  156 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLS---KV-VNIIPVIAKADTMTLE  156 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHH---TT-SEEEEEETTGGGSCHH
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHH---hc-CcEEEEEeccccCCHH
Confidence               000                  011335688888898652 211111 22233332   23 8999999999987543


Q ss_pred             CCC--HHHHHHHHHhcCCeEEEe
Q 028507          131 QVS--IEEGEAKSRELNVMFIET  151 (208)
Q Consensus       131 ~~~--~~~~~~~~~~~~~~~~~~  151 (208)
                      +..  ...+......+++.+++.
T Consensus       157 e~~~~k~~i~~~l~~~~i~i~~~  179 (270)
T 3sop_A          157 EKSEFKQRVRKELEVNGIEFYPQ  179 (270)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCSSC
T ss_pred             HHHHHHHHHHHHHHHcCccccCC
Confidence            321  233344455667766643

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.85  E-value=2.7e-09  Score=84.24  Aligned_cols=97  Identities=22%  Similarity=0.261  Sum_probs=72.4

Q ss_pred             CchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHH----HH
Q 028507           67 GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAK----SR  142 (208)
Q Consensus        67 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~----~~  142 (208)
                      .++.|..+...+...++++++|+|++++.+     .|...+....+ +.|+++|+||+|+.+.. ....+...+    +.
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~-~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAA-DNPILLVGNKADLLPRS-VKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCT-TSCEEEEEECGGGSCTT-CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhC-CCCEEEEEEChhcCCCc-cCHHHHHHHHHHHHH
Confidence            467888888888899999999999998763     34444444443 68999999999997543 223333333    45


Q ss_pred             hcCC---eEEEeecCCCCChHHHHHHHHHHc
Q 028507          143 ELNV---MFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       143 ~~~~---~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ..|+   .++.+||++|.|++++++.+.+..
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            5676   789999999999999999997765

>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=98.79  E-value=1.1e-08  Score=77.74  Aligned_cols=100  Identities=10%  Similarity=0.084  Sum_probs=68.8

Q ss_pred             EEEcCCch-hhhhchhhhccCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHH
Q 028507           62 LWDTAGQE-RFRSLIPSYIRDSSVAVVVYDVASRQSFLN--TSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGE  138 (208)
Q Consensus        62 i~D~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~  138 (208)
                      |-..|||. .........+..+|+++.|+|+.+|.+...  +..++        .++|+++|+||+|+.+...  .+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~~--~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAAV--TQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHHH--HHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHHH--HHHHH
Confidence            44578876 344556667899999999999998876542  33222        3599999999999976321  12223


Q ss_pred             HHHHhcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          139 AKSRELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       139 ~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      .+....+++++.+||.++.|++++++.+.+.+.
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~  105 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQ  105 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHH
Confidence            334455789999999999999999998877764

>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=98.78  E-value=1.6e-07  Score=74.85  Aligned_cols=161  Identities=12%  Similarity=0.100  Sum_probs=85.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCcc-c--eeeEEEEEEECCEEEEEEEEEcCCchhhhhchh-----hhcc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATI-G--IDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIP-----SYIR   80 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~-~--~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~-----~~~~   80 (208)
                      ...++|+|++|+|||||+|.|.+...+....... +  .+......... ..-.+.+||++|.........     ..+.
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~-~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~  147 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVFWDLPGIGSTNFPPDTYLEKMKFY  147 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEEEECCCGGGSSCCHHHHHHHTTGG
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEecccc-ccCCeeehHhhcccchHHHHHHHHHHcCCC
Confidence            3589999999999999999999754322111111 0  00001111111 111479999998542111111     1233


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC--c-----ccCCCHHHH----HHHH----HhcC
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV--E-----KRQVSIEEG----EAKS----RELN  145 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~--~-----~~~~~~~~~----~~~~----~~~~  145 (208)
                      ..+..++ ++...... .. ......+..   .+.|+++|.||.|+.  +     -......+.    ..+.    .+.+
T Consensus       148 ~~~~~~~-lS~G~~~k-qr-v~la~aL~~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g  221 (413)
T 1tq4_A          148 EYDFFII-ISATRFKK-ND-IDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENG  221 (413)
T ss_dssp             GCSEEEE-EESSCCCH-HH-HHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccCCeEE-eCCCCccH-HH-HHHHHHHHh---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcC
Confidence            4455555 77652111 11 111222222   348999999999874  1     011122222    2222    1222


Q ss_pred             ---CeEEEeec--CCCCChHHHHHHHHHHcCCCccc
Q 028507          146 ---VMFIETSA--KAGFNIKPLFRKIAAALPGMETL  176 (208)
Q Consensus       146 ---~~~~~~sa--~~~~~i~~~~~~l~~~~~~~~~~  176 (208)
                         ..++.+|+  .++.+++++.+.+...+++.+..
T Consensus       222 ~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg~~~  257 (413)
T 1tq4_A          222 IAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKRH  257 (413)
T ss_dssp             CSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGHH
T ss_pred             CCCCcEEEEecCcCCccCHHHHHHHHHHhCccchhh
Confidence               36788999  56667999999999998766543

>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=98.53  E-value=8.2e-08  Score=73.00  Aligned_cols=57  Identities=21%  Similarity=0.302  Sum_probs=35.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      ..++++++|.+|+|||||+|+|.+... .....+.++....  .+....   .+.+|||||..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~~--~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQ--WVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCCC------------C--CEEETT---TEEEEECCCCC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeeeE--EEEeCC---CEEEEECcCcC
Confidence            468999999999999999999998763 2333333332221  222322   48999999964

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.45  E-value=6.2e-08  Score=72.90  Aligned_cols=57  Identities=23%  Similarity=0.315  Sum_probs=35.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      ++++++|.+|+|||||+|+|.+...... .++.+.+.....+....   .+.+|||||...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSV-GAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhccccccc-CCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            5999999999999999999997765321 12222222222222222   489999999654

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.45  E-value=2.2e-07  Score=74.70  Aligned_cols=83  Identities=17%  Similarity=0.111  Sum_probs=47.5

Q ss_pred             EEEEEEEcCCchhhhh-ch---h--hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC-c-EEEEEeCCCCCcc
Q 028507           58 VRLQLWDTAGQERFRS-LI---P--SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDV-I-IVLVGNKTDLVEK  129 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~---~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p-iivv~nK~D~~~~  129 (208)
                      +.+.|+||||...... +.   .  ..+..+|.+++|+|++...   ........+.    ..+ | ..+|+||+|....
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~----~~~~~i~gvVlnK~D~~~~  253 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQ---QAGIQAKAFK----EAVGEIGSIIVTKLDGSAK  253 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGG---GHHHHHHHHH----TTSCSCEEEEEECSSSCST
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccH---HHHHHHHHHh----hcccCCeEEEEeCCCCccc
Confidence            5689999999543211 11   1  1123689999999987442   1222222222    235 5 7888999997431


Q ss_pred             cCCCHHHHHHHHHhcCCeEEEe
Q 028507          130 RQVSIEEGEAKSRELNVMFIET  151 (208)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~  151 (208)
                      .    ..+.......+.++.++
T Consensus       254 ~----g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          254 G----GGALSAVAETKAPIKFI  271 (432)
T ss_dssp             T----HHHHHHHHHSSCCEEEE
T ss_pred             h----HHHHHHHHHHCCCEEEe
Confidence            1    22334556667766655

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.38  E-value=1.1e-06  Score=70.48  Aligned_cols=91  Identities=18%  Similarity=0.088  Sum_probs=53.2

Q ss_pred             EEEEEEEcCCchhhhh-c---hh--hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRS-L---IP--SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~---~~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      +.+.|+||+|...... .   ..  ......|.+++|+|++.....   ......+....   .+..+|+||.|....  
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a---~~~a~~f~~~~---~i~gVIlTKlD~~~~--  254 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQA---YNQALAFKEAT---PIGSIIVTKLDGSAK--  254 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGH---HHHHHHHHHSC---TTEEEEEECCSSCSS--
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhH---HHHHHHHHhhC---CCeEEEEECCCCccc--
Confidence            5689999999432111 0   11  113467999999999753322   22223333322   345678899997432  


Q ss_pred             CCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507          132 VSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                        ...+.......+.++.+++.  |++++
T Consensus       255 --gG~~ls~~~~~g~PI~fig~--Ge~vd  279 (443)
T 3dm5_A          255 --GGGALSAVAATGAPIKFIGT--GEKID  279 (443)
T ss_dssp             --HHHHHHHHHTTCCCEEEEEC--SSSTT
T ss_pred             --ccHHHHHHHHHCCCEEEEEc--CCChH
Confidence              23345555677888887774  65443

>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=98.28  E-value=4.9e-07  Score=75.12  Aligned_cols=64  Identities=14%  Similarity=0.018  Sum_probs=39.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCC-ccceeeEEEEE--EE-CCEEEEEEEEEcCCchh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA-TIGIDFLSKTM--YL-EDRTVRLQLWDTAGQER   70 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~-~~~~~~~~~~~--~~-~~~~~~~~i~D~~G~~~   70 (208)
                      .+..+|+|+|.+|+|||||+|+|++......... +.+.+......  .. ......+.++||||...
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            3457899999999999999999998764211111 11111111111  11 11224699999999654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.28  E-value=3.9e-07  Score=68.53  Aligned_cols=94  Identities=14%  Similarity=0.056  Sum_probs=62.0

Q ss_pred             cCCchhh-hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh
Q 028507           65 TAGQERF-RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE  143 (208)
Q Consensus        65 ~~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~  143 (208)
                      .|||... .......+.++|++++|+|+.+|.+.....  +. +   .  ++|.++|+||+|+.+...  .+....+...
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~--l~-l---l--~k~~iivlNK~DL~~~~~--~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG--VD-F---S--RKETIILLNKVDIADEKT--TKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT--SC-C---T--TSEEEEEEECGGGSCHHH--HHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH--HH-h---c--CCCcEEEEECccCCCHHH--HHHHHHHHHH
Confidence            3665532 234556689999999999999886654311  11 1   1  589999999999976422  1222334445


Q ss_pred             cCCeEEEeecCCCCChHHHHHHHHHH
Q 028507          144 LNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus       144 ~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      .++++ .+|++++.|++++++.+...
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~~   98 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFDR   98 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCCT
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHHh
Confidence            57888 99999999999998887654

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.20  E-value=6e-07  Score=71.96  Aligned_cols=90  Identities=13%  Similarity=0.052  Sum_probs=53.5

Q ss_pred             EEEEEEEcCCchh--hh----hchhh--hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc
Q 028507           58 VRLQLWDTAGQER--FR----SLIPS--YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK  129 (208)
Q Consensus        58 ~~~~i~D~~G~~~--~~----~~~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~  129 (208)
                      +.+.|+||||...  ..    .....  .....+.+++|+|+......   ......+....   .+..+|+||.|... 
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a---~~~a~~f~~~~---~~~gVIlTKlD~~a-  252 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKA---YDLASRFHQAS---PIGSVIITKMDGTA-  252 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGG---HHHHHHHHHHC---SSEEEEEECGGGCS-
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHH---HHHHHHHhccc---CCcEEEEecccccc-
Confidence            5688999999533  11    11111  12256899999999753222   22233343332   44678889999642 


Q ss_pred             cCCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507          130 RQVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                         ....+.......+.|+.+++.  |+++
T Consensus       253 ---~~G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 ---KGGGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             ---CHHHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             ---cchHHHHHHHHHCCCEEEEEC--CCCh
Confidence               234455566677999888875  6554

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.20  E-value=4.6e-07  Score=69.49  Aligned_cols=91  Identities=19%  Similarity=0.210  Sum_probs=60.0

Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhH-HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--CHHHHHHHHHhcCCe
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSF-LNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--SIEEGEAKSRELNVM  147 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~  147 (208)
                      ...+.+..+.++|.+++|+|+.+|..- ..+.+++....   ..++|.++|+||+|+.++...  ............|++
T Consensus        76 ~~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~---~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~  152 (307)
T 1t9h_A           76 TNELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE---ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYD  152 (307)
T ss_dssp             SCEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH---TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCC
T ss_pred             hhhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH---HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCe
Confidence            344555678999999999999977543 33444333222   235888999999999765320  012233333455889


Q ss_pred             EEEeecCCCCChHHHHH
Q 028507          148 FIETSAKAGFNIKPLFR  164 (208)
Q Consensus       148 ~~~~sa~~~~~i~~~~~  164 (208)
                      ++.+|+.++.|+++++.
T Consensus       153 v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          153 VYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             EEECCHHHHTTCTTTGG
T ss_pred             EEEEecCCCCCHHHHHh
Confidence            99999998887766554

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.06  E-value=7.5e-06  Score=68.69  Aligned_cols=25  Identities=28%  Similarity=0.421  Sum_probs=21.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      ..++|+|++|+|||||++.+.+...
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~~   70 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVAL   70 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC-
T ss_pred             CeEEEECCCCChHHHHHHHHhCCCC
Confidence            4599999999999999999987643

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.05  E-value=8.8e-06  Score=62.21  Aligned_cols=91  Identities=12%  Similarity=0.045  Sum_probs=55.7

Q ss_pred             EEEEEEEcCCchh--hhh-chh-----hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCc
Q 028507           58 VRLQLWDTAGQER--FRS-LIP-----SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVE  128 (208)
Q Consensus        58 ~~~~i~D~~G~~~--~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~  128 (208)
                      +.+.|+||||...  ... +..     .....+|.+++|+|+...   .........+..    ..+ ..+|.||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g---~~~~~~~~~~~~----~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG---QKAYDLASKFNQ----ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG---GGHHHHHHHHHH----TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch---HHHHHHHHHHHh----hCCCCEEEEeCCCCCc
Confidence            5699999999655  211 211     124578999999998642   122222233332    245 677889999642


Q ss_pred             ccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                          ....+.......+.++.+++  .|+++++
T Consensus       254 ----~~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          254 ----KGGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             ----THHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ----chHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence                23345566777888888776  5666654

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.90  E-value=7.3e-07  Score=72.59  Aligned_cols=110  Identities=12%  Similarity=0.055  Sum_probs=60.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh--hhhch--------h
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER--FRSLI--------P   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~--------~   76 (208)
                      ...++|+++|.+|+||||+.++|...... ...++.............+......+||..|.+.  ....+        .
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~-~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~  115 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNF-IGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVR  115 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhc-cCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHH
Confidence            34678999999999999999998754220 0011111000000000001112346788888632  22222        4


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVG  121 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~  121 (208)
                      .++...++.++|+|.++. .......|+..+....   .+++++-
T Consensus       116 ~~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~~---~~vv~l~  156 (469)
T 1bif_A          116 KFLSEEGGHVAVFDATNT-TRERRAMIFNFGEQNG---YKTFFVE  156 (469)
T ss_dssp             HHHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHHT---CEEEEEE
T ss_pred             HHHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhcC---CcEEEEE
Confidence            455567888999999986 5556666666665442   4455543

>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=97.88  E-value=4.9e-05  Score=59.42  Aligned_cols=85  Identities=18%  Similarity=0.211  Sum_probs=55.2

Q ss_pred             hccCCcEEEEEEeCCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC-HHHHHHHHHhcCCeEEEeecCC
Q 028507           78 YIRDSSVAVVVYDVASRQS-FLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS-IEEGEAKSRELNVMFIETSAKA  155 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~-~~~~~~~~~~~~~~~~~~sa~~  155 (208)
                      .+.++|.+++|.+. +|.. ...+.+++......   ++|.++|+||+|+.++.... ..+........|++++.+|+.+
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            36799999988765 4543 33344444333222   37889999999997643210 1112223345688999999999


Q ss_pred             CCChHHHHHHH
Q 028507          156 GFNIKPLFRKI  166 (208)
Q Consensus       156 ~~~i~~~~~~l  166 (208)
                      +.+++++...+
T Consensus       203 ~~gl~~L~~~~  213 (358)
T 2rcn_A          203 QDGLKPLEEAL  213 (358)
T ss_dssp             TBTHHHHHHHH
T ss_pred             CcCHHHHHHhc
Confidence            99998887654

>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=97.77  E-value=4.4e-05  Score=61.46  Aligned_cols=25  Identities=12%  Similarity=0.118  Sum_probs=21.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +-.-|.|+|++++|||||+|.|++.
T Consensus        66 ~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           66 EVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             BEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHhhh
Confidence            3455788999999999999999864

>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=97.58  E-value=4.1e-05  Score=53.99  Aligned_cols=23  Identities=26%  Similarity=0.632  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++++|+|++|+|||||++.+.+.
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            47899999999999999988754

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.46  E-value=6.7e-05  Score=52.90  Aligned_cols=23  Identities=30%  Similarity=0.535  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      --++|+|++|+|||||++.|.+.
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46899999999999999998864

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.42  E-value=7.8e-05  Score=53.44  Aligned_cols=22  Identities=18%  Similarity=0.492  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -.++|+|++|+|||||++.|.+
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999999875

>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=97.33  E-value=5.6e-05  Score=57.94  Aligned_cols=25  Identities=28%  Similarity=0.454  Sum_probs=20.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .-.++|+|++|+|||||+|.|.+..
T Consensus       173 G~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          173 DKTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CCEEEEECCCCCCHHHHHHHhcccc
Confidence            3478999999999999999998654

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.33  E-value=0.0011  Score=53.22  Aligned_cols=83  Identities=13%  Similarity=0.027  Sum_probs=44.6

Q ss_pred             EEEEEEEcCCchhhhh-chh-----hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCccc
Q 028507           58 VRLQLWDTAGQERFRS-LIP-----SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKR  130 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~  130 (208)
                      +.+.|+||||...... +..     ..+...+.+++|+|+.....   .......+...    ++ .-+|+||.|.....
T Consensus       184 ~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~---~~~~~~~f~~~----l~i~gvVlnK~D~~~~~  256 (433)
T 2xxa_A          184 YDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQD---AANTAKAFNEA----LPLTGVVLTKVDGDARG  256 (433)
T ss_dssp             CSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTT---HHHHHHHHHHH----SCCCCEEEECTTSSSCC
T ss_pred             CCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHH---HHHHHHHHhcc----CCCeEEEEecCCCCccH
Confidence            5699999999543321 111     12347889999999874322   22222333322    33 34577999974322


Q ss_pred             CCCHHHHHHHHHhcCCeEEEe
Q 028507          131 QVSIEEGEAKSRELNVMFIET  151 (208)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~  151 (208)
                          ..+.......+.++..+
T Consensus       257 ----g~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          257 ----GAALSIRHITGKPIKFL  273 (433)
T ss_dssp             ----THHHHHHHHHCCCEEEE
T ss_pred             ----HHHHHHHHHHCCCeEEE
Confidence                12334445556554443

>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=97.28  E-value=0.00019  Score=51.32  Aligned_cols=26  Identities=23%  Similarity=0.492  Sum_probs=21.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++.--|+|+|++|+|||||++.|...
T Consensus        17 ~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           17 QGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            44557899999999999999999854

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.27  E-value=0.00014  Score=52.02  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      --++|+|++|+|||||++.|.+.
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            45899999999999999998764

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.27  E-value=0.00015  Score=52.93  Aligned_cols=25  Identities=16%  Similarity=0.274  Sum_probs=21.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .--++|+|++|+|||||++.|.+..
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            4467899999999999999988643

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.26  E-value=0.00016  Score=51.25  Aligned_cols=21  Identities=19%  Similarity=0.586  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+|+||+|+|||||+++|...
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999754

>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=97.24  E-value=0.00016  Score=52.12  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            57899999999999999987643

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.24  E-value=0.00025  Score=49.44  Aligned_cols=24  Identities=17%  Similarity=0.297  Sum_probs=20.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|+|++|+||||+.+.|..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            346799999999999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.24  E-value=0.00016  Score=52.65  Aligned_cols=24  Identities=33%  Similarity=0.647  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -.++|+|++|+|||||++.|.+..
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            458999999999999999988643

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.24  E-value=0.00016  Score=50.49  Aligned_cols=20  Identities=20%  Similarity=0.532  Sum_probs=17.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      -++++|++|+|||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47899999999999999644

>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=0.00027  Score=50.00  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=21.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-.|+|+|++|+|||||++.|.+.
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            356899999999999999999865

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.18  E-value=0.00022  Score=51.48  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      --|+|+|++|+|||||++.|....
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            458899999999999999998653

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.18  E-value=0.00027  Score=49.59  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ++...|+|+|++|+||||+.+.|.
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~   32 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELA   32 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHH
Confidence            345679999999999999999886

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.16  E-value=0.00026  Score=51.05  Aligned_cols=25  Identities=12%  Similarity=0.254  Sum_probs=21.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +...|+|+|++|+|||||++.|.+.
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988753

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.13  E-value=0.00029  Score=49.73  Aligned_cols=23  Identities=26%  Similarity=0.182  Sum_probs=20.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ...|+|.|++|+||||+.+.|..
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            46799999999999999998863

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.12  E-value=0.00028  Score=48.88  Aligned_cols=20  Identities=15%  Similarity=0.250  Sum_probs=18.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHh
Q 028507           10 YKLVFLGDQSVGKTSIITRF   29 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l   29 (208)
                      +.|+|+|++|+||||+.+.|
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            56899999999999999998

>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=97.12  E-value=0.00025  Score=52.23  Aligned_cols=23  Identities=13%  Similarity=0.241  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999888654

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.09  E-value=0.0004  Score=49.03  Aligned_cols=27  Identities=19%  Similarity=0.278  Sum_probs=22.5

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++...|+|+|++|+||||+.+.|...
T Consensus         7 ~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            7 QPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            345578999999999999999988654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.09  E-value=0.00035  Score=50.02  Aligned_cols=26  Identities=27%  Similarity=0.413  Sum_probs=21.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      +...|+|+|++|+||||+++.|.+..
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34578999999999999999987654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.09  E-value=0.00029  Score=50.54  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=21.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +..-|+|+|++|+|||||.+.|...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4567899999999999999998753

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.07  E-value=0.00032  Score=50.66  Aligned_cols=21  Identities=19%  Similarity=0.428  Sum_probs=19.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      ++|+|+|++|+||||+.+.|.
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~   21 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQII   21 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999885

>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=97.07  E-value=0.00032  Score=48.37  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=20.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -.++++|+.|+|||||++.+.+..
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            358899999999999999988654

>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=97.05  E-value=0.00032  Score=54.88  Aligned_cols=25  Identities=24%  Similarity=0.382  Sum_probs=21.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      -.++|+|++|+|||||+|.|.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CEEEEECCCCccHHHHHHHHhcccc
Confidence            3689999999999999999997553

>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=97.05  E-value=0.00035  Score=50.54  Aligned_cols=21  Identities=29%  Similarity=0.425  Sum_probs=19.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      ++|+|+|++|+||||+.+.|.
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~   21 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIV   21 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999885

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.05  E-value=0.00042  Score=48.37  Aligned_cols=22  Identities=23%  Similarity=0.401  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+||||+.+.|..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.05  E-value=0.00034  Score=48.60  Aligned_cols=23  Identities=17%  Similarity=0.366  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..|+|+|++|+||||+.+.|...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999988753

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.04  E-value=0.00047  Score=49.48  Aligned_cols=25  Identities=24%  Similarity=0.166  Sum_probs=21.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |+...|+|.|++|+||||+.+.|..
T Consensus         2 m~~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            2 KKGVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            3457899999999999999998864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.04  E-value=0.00031  Score=51.35  Aligned_cols=23  Identities=13%  Similarity=0.238  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999988654

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.03  E-value=0.00039  Score=50.02  Aligned_cols=24  Identities=17%  Similarity=0.324  Sum_probs=20.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|+|++|+|||||++.|.+
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998875

>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=97.01  E-value=0.00037  Score=49.26  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -++|+|++|+|||||++.|..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            578999999999999999974

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.01  E-value=0.00039  Score=51.39  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999988654

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.01  E-value=0.00041  Score=48.04  Aligned_cols=21  Identities=10%  Similarity=0.240  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .|+|.|++|+||||+.+.|..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.00  E-value=0.00042  Score=50.60  Aligned_cols=21  Identities=24%  Similarity=0.514  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      +.|+|+|++|+||||+.+.|.
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La   28 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRIT   28 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            689999999999999999886

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.99  E-value=0.00051  Score=48.56  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=20.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|.|++|+||||+.+.|..
T Consensus         2 ~~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            2 KPLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999988753

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.98  E-value=0.00041  Score=51.99  Aligned_cols=23  Identities=13%  Similarity=0.377  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|+.|+|||||++.+.+-.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999988654

>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=96.98  E-value=0.00041  Score=51.18  Aligned_cols=23  Identities=17%  Similarity=0.465  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999988653

>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=96.98  E-value=0.00043  Score=50.22  Aligned_cols=23  Identities=22%  Similarity=0.367  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999988654

>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=96.97  E-value=0.00042  Score=52.29  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999988654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.97  E-value=0.00042  Score=49.25  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|++|+|||||++.+.+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            5899999999999999988753

>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=96.96  E-value=0.00049  Score=50.90  Aligned_cols=21  Identities=29%  Similarity=0.512  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      ..|+|+|++|+|||||++.|.
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            579999999999999999987

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.95  E-value=0.00058  Score=47.64  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4689999999999999999876

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.95  E-value=0.0006  Score=47.96  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=20.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +...|+|+|++|+||||+.+.|.
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La   25 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLA   25 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34689999999999999999886

>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=96.95  E-value=0.00044  Score=51.90  Aligned_cols=23  Identities=13%  Similarity=0.290  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47899999999999999988654

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.94  E-value=0.00053  Score=48.89  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|+|.|++|+||||+.+.|..
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            3689999999999999998864

>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=96.94  E-value=0.00047  Score=52.74  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=20.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .=.++|+|++|+|||||++.|.+-
T Consensus       126 Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          126 KNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhhh
Confidence            346899999999999999988754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.94  E-value=0.00055  Score=48.93  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=20.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ...|+|+|++|+|||||++.|.+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999998864

>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=96.94  E-value=0.00052  Score=50.82  Aligned_cols=24  Identities=21%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|+.|+|||||++.+.+-.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            368999999999999999988654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.94  E-value=0.00061  Score=48.94  Aligned_cols=24  Identities=21%  Similarity=0.192  Sum_probs=20.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|.|.+|+||||+.+.|..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHH
Confidence            357899999999999999998864

>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=96.94  E-value=0.00046  Score=51.53  Aligned_cols=23  Identities=17%  Similarity=0.241  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988654

>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=96.93  E-value=0.0005  Score=48.20  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-++|+|++|+|||||+++|...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            35789999999999999999864

>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=96.93  E-value=0.00052  Score=50.93  Aligned_cols=23  Identities=13%  Similarity=0.161  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999988654

>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=96.93  E-value=0.0005  Score=50.43  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988654

>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=96.92  E-value=0.00049  Score=51.56  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            57899999999999999988654

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.92  E-value=0.00057  Score=49.29  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |.|+|+|+|||||+|....|..
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            5799999999999999888763

>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=96.91  E-value=0.00051  Score=50.76  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.91  E-value=0.00049  Score=51.51  Aligned_cols=23  Identities=17%  Similarity=0.258  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      =.++|+|+.|+|||||++.+.+.
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            46899999999999999988753

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.90  E-value=0.00061  Score=52.07  Aligned_cols=25  Identities=20%  Similarity=0.137  Sum_probs=21.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      -.++++|++|+|||||+|.|.+...
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             CeEEEECCCCCcHHHHHHHhccccc
Confidence            4578999999999999999986543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.89  E-value=0.00054  Score=50.90  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999988654

>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=96.89  E-value=0.00055  Score=51.11  Aligned_cols=23  Identities=17%  Similarity=0.198  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999988654

>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=96.88  E-value=0.00056  Score=48.93  Aligned_cols=22  Identities=18%  Similarity=0.366  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+|+|++|+||||+.+.|..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999998875

>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=96.88  E-value=0.00056  Score=50.86  Aligned_cols=22  Identities=18%  Similarity=0.292  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999875

>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=96.88  E-value=0.00062  Score=49.50  Aligned_cols=22  Identities=14%  Similarity=0.172  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+||||+.+.|..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.88  E-value=0.00061  Score=50.98  Aligned_cols=23  Identities=17%  Similarity=0.236  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58899999999999999988653

>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=96.87  E-value=0.00082  Score=47.97  Aligned_cols=25  Identities=16%  Similarity=0.327  Sum_probs=21.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ...+.|+|+|++|+||||+.+.|..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.86  E-value=0.00057  Score=51.44  Aligned_cols=23  Identities=13%  Similarity=0.203  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999988654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.86  E-value=0.00044  Score=49.95  Aligned_cols=22  Identities=23%  Similarity=0.164  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|+.|+|||||++.+.+.
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998865

>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=96.86  E-value=0.00062  Score=51.15  Aligned_cols=22  Identities=14%  Similarity=0.267  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|+.|+|||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999875

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.85  E-value=0.00061  Score=49.21  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+|.|++|+||||+.+.|..
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            4799999999999999998863

>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=96.85  E-value=0.0007  Score=48.68  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=20.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|.|++|+||||+.+.|..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998874

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.85  E-value=0.0007  Score=47.75  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|.|++|+||||+.+.|..
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            3689999999999999998864

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.84  E-value=0.00067  Score=51.27  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999988654

>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=96.84  E-value=0.00052  Score=48.13  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++++|++|+|||||++.+.+.
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.84  E-value=0.00072  Score=48.26  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+||||+.+.|..
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            4789999999999999998863

>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=96.83  E-value=0.00062  Score=52.07  Aligned_cols=24  Identities=29%  Similarity=0.603  Sum_probs=20.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .-.++++|++|+|||||+|.|. ..
T Consensus       165 G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          165 GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            3468999999999999999998 43

>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=96.83  E-value=0.00076  Score=47.62  Aligned_cols=23  Identities=17%  Similarity=0.310  Sum_probs=20.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ...|+|+|++|+||||+.+.|..
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            36789999999999999998864

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.83  E-value=0.00067  Score=48.50  Aligned_cols=22  Identities=23%  Similarity=0.267  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+||||+.+.|..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>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=96.83  E-value=0.00066  Score=48.53  Aligned_cols=24  Identities=13%  Similarity=0.095  Sum_probs=20.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ...|+|+|++|+|||||.+.|...
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999988643

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.82  E-value=0.00065  Score=50.60  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999988654

>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=96.82  E-value=0.00082  Score=48.16  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|+|+|++|+||||+.+.|..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999875

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.81  E-value=0.0004  Score=50.84  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=15.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh-cC
Q 028507           10 YKLVFLGDQSVGKTSIITRFM-YD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~-~~   32 (208)
                      --++|+|++|+|||||++.|. +.
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            358899999999999999998 54

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.80  E-value=0.00068  Score=50.88  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999988653

>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=96.79  E-value=0.00091  Score=47.70  Aligned_cols=24  Identities=29%  Similarity=0.296  Sum_probs=21.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+.|+|.|++|+||||+.+.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999988754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.79  E-value=0.00084  Score=46.35  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+|.|.+|+||||+.+.|..
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            4799999999999999998864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.79  E-value=0.0027  Score=42.73  Aligned_cols=24  Identities=8%  Similarity=0.159  Sum_probs=20.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ...|++.|++|+|||++.+.+...
T Consensus        27 ~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           27 TSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CCcEEEECCCCccHHHHHHHHHHh
Confidence            356999999999999999877643

>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=96.78  E-value=0.0007  Score=52.02  Aligned_cols=26  Identities=15%  Similarity=0.165  Sum_probs=22.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+..-|+|+|++|+|||||++.|.+.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhh
Confidence            44577999999999999999988754

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.77  E-value=0.00098  Score=49.27  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=21.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.++|+|.|++|+||||+.+.|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998863

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.76  E-value=0.00087  Score=50.22  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.76  E-value=0.0014  Score=46.69  Aligned_cols=22  Identities=18%  Similarity=0.336  Sum_probs=19.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      -..|+|.|++|+||||+.+.|.
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~   36 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLV   36 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3578899999999999998886

>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=96.75  E-value=0.00099  Score=48.30  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=20.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+.|+|+|++|+||||+.+.|..
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            36899999999999999988763

>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=96.74  E-value=0.00073  Score=49.09  Aligned_cols=23  Identities=17%  Similarity=0.182  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+..
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998643

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.74  E-value=0.0013  Score=46.24  Aligned_cols=25  Identities=28%  Similarity=0.238  Sum_probs=21.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++...|+|+|.+|+||||+.+.|..
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            4567899999999999999998864

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.73  E-value=0.00038  Score=48.69  Aligned_cols=22  Identities=41%  Similarity=0.558  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|++|+|||||++.|.+-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999988754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.71  E-value=0.0012  Score=50.04  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=21.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+..-|+|.|++|+||||+.+.|..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456789999999999999999864

>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=96.71  E-value=0.0011  Score=47.10  Aligned_cols=26  Identities=12%  Similarity=0.078  Sum_probs=22.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+.+.|+|+|++|+||||+.+.|...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            44578999999999999999988754

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.71  E-value=0.001  Score=46.75  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+++|++|+||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998863

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.70  E-value=0.001  Score=48.42  Aligned_cols=22  Identities=14%  Similarity=0.187  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|+|.|++|+||||+.+.|..
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            4699999999999999998863

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.69  E-value=0.0006  Score=52.21  Aligned_cols=24  Identities=21%  Similarity=0.353  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        81 e~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CEEEEECCCCchHHHHHHHHHcCC
Confidence            368999999999999999887543

>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=96.67  E-value=0.00079  Score=52.87  Aligned_cols=25  Identities=20%  Similarity=0.353  Sum_probs=21.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .-+++|+|++|+|||||++.|.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999888653

>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=96.67  E-value=0.00088  Score=52.39  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999988754

>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=96.67  E-value=0.0032  Score=50.66  Aligned_cols=63  Identities=21%  Similarity=0.301  Sum_probs=37.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc------------------CcCCC---CCCCccceeeEEEEEEE---CCEEEEEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY------------------DKFDN---TYQATIGIDFLSKTMYL---EDRTVRLQLW   63 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~------------------~~~~~---~~~~~~~~~~~~~~~~~---~~~~~~~~i~   63 (208)
                      +-.-|.|+|+.++|||+|+|.|+.                  ..|..   ...-|.|+-.....+..   ++..+.+.++
T Consensus        66 ~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vlll  145 (457)
T 4ido_A           66 EVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLM  145 (457)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEEE
T ss_pred             ceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEEE
Confidence            335566899999999999996641                  12211   11223333322222211   4567889999


Q ss_pred             EcCCchh
Q 028507           64 DTAGQER   70 (208)
Q Consensus        64 D~~G~~~   70 (208)
                      ||.|...
T Consensus       146 DTEG~~d  152 (457)
T 4ido_A          146 DTQGTFD  152 (457)
T ss_dssp             EECCBTC
T ss_pred             eccCCCC
Confidence            9999553

>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=96.66  E-value=0.0015  Score=45.97  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|.|++|+||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988863

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.65  E-value=0.0013  Score=48.50  Aligned_cols=24  Identities=17%  Similarity=0.364  Sum_probs=20.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|+|+.|+|||||++.|.+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.65  E-value=0.0012  Score=46.63  Aligned_cols=22  Identities=14%  Similarity=0.300  Sum_probs=19.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ...|+|+|++|+||||+.+.|.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La   30 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIV   30 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999886

>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=96.65  E-value=0.0013  Score=47.07  Aligned_cols=25  Identities=16%  Similarity=0.271  Sum_probs=21.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +...|+|+|++|+|||||.+.|...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3467899999999999999988754

>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=96.65  E-value=0.0033  Score=44.95  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .++|.|++|+|||+|++.+..
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            389999999999999998864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.63  E-value=0.0011  Score=51.88  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999988654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.62  E-value=0.0051  Score=41.45  Aligned_cols=24  Identities=8%  Similarity=0.065  Sum_probs=20.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ...|++.|++|+|||++.+.+...
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHh
Confidence            356999999999999999988754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.62  E-value=0.0012  Score=46.52  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|+|.|.+|+||||+.+.|..
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            3589999999999999998864

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.62  E-value=0.0016  Score=48.44  Aligned_cols=22  Identities=14%  Similarity=0.199  Sum_probs=20.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ...|+|+|++|+||||+.+.|.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999887

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.62  E-value=0.00075  Score=47.28  Aligned_cols=24  Identities=21%  Similarity=0.110  Sum_probs=16.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|.|.+|+||||+.+.|..
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998863

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.62  E-value=0.0011  Score=50.38  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999988653

>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=96.62  E-value=0.0013  Score=45.82  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..+.|+|++|+|||||+.+|..
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            3588999999999999998875

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.61  E-value=0.0011  Score=51.82  Aligned_cols=23  Identities=22%  Similarity=0.226  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            47899999999999999988653

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.61  E-value=0.0012  Score=51.80  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCC
Confidence            47899999999999999888654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.60  E-value=0.0012  Score=51.78  Aligned_cols=23  Identities=17%  Similarity=0.260  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999988654

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.60  E-value=0.0012  Score=45.99  Aligned_cols=21  Identities=24%  Similarity=0.485  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      +|+|+|++|+||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999988863

>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=96.60  E-value=0.0012  Score=52.06  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            47899999999999999988654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.58  E-value=0.00082  Score=45.80  Aligned_cols=24  Identities=13%  Similarity=0.379  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -.++++|++|+|||+|++.+.+..
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            358899999999999999887643

>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=96.58  E-value=0.0011  Score=51.78  Aligned_cols=22  Identities=14%  Similarity=0.296  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|+.|+|||||++.+.+.
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            7899999999999999988753

>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=96.57  E-value=0.0012  Score=50.52  Aligned_cols=89  Identities=18%  Similarity=0.105  Sum_probs=47.8

Q ss_pred             EEEEEEcCCchhhhh------------chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           59 RLQLWDTAGQERFRS------------LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~------------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                      .+.++|++|......            +.+......+.++++.|......   +...+..+....+  + .++++||.|.
T Consensus       186 d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~---~~~~~~~~~~~~~--~-t~iivTh~d~  259 (304)
T 1rj9_A          186 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQN---GLEQAKKFHEAVG--L-TGVIVTKLDG  259 (304)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTH---HHHHHHHHHHHHC--C-SEEEEECTTS
T ss_pred             CEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHH---HHHHHHHHHHHcC--C-cEEEEECCcc
Confidence            356899999532111            11122345777888999874432   2223333333322  3 3566799986


Q ss_pred             CcccCCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507          127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      ....    ..+.......+.++.++.  .|+.+
T Consensus       260 ~a~g----g~~l~i~~~~~~pi~~ig--~Ge~~  286 (304)
T 1rj9_A          260 TAKG----GVLIPIVRTLKVPIKFVG--VGEGP  286 (304)
T ss_dssp             SCCC----TTHHHHHHHHCCCEEEEE--CSSST
T ss_pred             cccc----cHHHHHHHHHCCCeEEEe--CCCCh
Confidence            4322    233455666788777765  44443

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.56  E-value=0.0013  Score=51.78  Aligned_cols=23  Identities=30%  Similarity=0.352  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47899999999999999988643

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.56  E-value=0.0013  Score=51.83  Aligned_cols=23  Identities=22%  Similarity=0.330  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            47899999999999999988654

>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=96.55  E-value=0.0021  Score=48.82  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=20.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      .+...|+|+|++|+|||||.+.|.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            355789999999999999998765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.55  E-value=0.0013  Score=49.61  Aligned_cols=21  Identities=19%  Similarity=0.365  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++++|++|+|||||++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999998764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.55  E-value=0.0012  Score=47.92  Aligned_cols=21  Identities=19%  Similarity=0.259  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      +.|+|+|++|+||||+.+.|.
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La   26 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIK   26 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            679999999999999999886

>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=96.54  E-value=0.0019  Score=47.24  Aligned_cols=26  Identities=19%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+..-|+|.|+.|+|||||++.|.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            44578999999999999999988765

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.52  E-value=0.0023  Score=46.43  Aligned_cols=25  Identities=32%  Similarity=0.497  Sum_probs=19.5

Q ss_pred             CCceeEE-EEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLV-FLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~-vvG~~~~GKstli~~l~~   31 (208)
                      +++.||+ |+|+|||||+|....|..
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4556655 579999999999888763

>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=96.52  E-value=0.0013  Score=50.89  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=21.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -.++|+|+.|+|||||++.+.+-.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999998654

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.52  E-value=0.0015  Score=47.23  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|+|+|++|+||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998853

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.51  E-value=0.0012  Score=51.78  Aligned_cols=24  Identities=25%  Similarity=0.474  Sum_probs=21.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -.++|+|+.|+|||||++.|.+..
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            479999999999999999998643

>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=96.48  E-value=0.0015  Score=51.41  Aligned_cols=23  Identities=17%  Similarity=0.258  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|+|++|+|||||++.+.+.
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46899999999999999988753

>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=96.48  E-value=0.0021  Score=44.95  Aligned_cols=24  Identities=17%  Similarity=0.173  Sum_probs=20.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|+|.+|+||||+.+.|..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998865

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.48  E-value=0.0019  Score=46.22  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=20.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|+|++|+|||||++.|.+
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998764

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.48  E-value=0.0015  Score=49.90  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=19.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .--++++|+.|+||||+++.|.+
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            34688999999999999998863

>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=96.47  E-value=0.0016  Score=48.27  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++|+|++|+|||||++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988754

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.47  E-value=0.002  Score=46.55  Aligned_cols=23  Identities=22%  Similarity=0.489  Sum_probs=20.5

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+.|+|.|++|+||||+.+.|..
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            47899999999999999998864

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.47  E-value=0.0019  Score=47.29  Aligned_cols=30  Identities=23%  Similarity=0.282  Sum_probs=20.1

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |+.+. -..+++.|+|++|+||||+...|..
T Consensus         1 ~~~~~-~~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            1 MAHHH-HHHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             ---------CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCccc-ccccceeeECCCCCCHHHHHHHHHH
Confidence            34433 4568999999999999999988753

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=96.45  E-value=0.0016  Score=47.67  Aligned_cols=29  Identities=28%  Similarity=0.287  Sum_probs=18.4

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |.+-++..-|+|.|++|+||||+++.|..
T Consensus        19 ~~~m~~g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           19 PGSMARGKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             ----CCCCEEEEECCC---CHHHHHHHHH
T ss_pred             CccccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            33334567799999999999999998763

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.45  E-value=0.00066  Score=48.82  Aligned_cols=21  Identities=14%  Similarity=0.324  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|+|+|++|+||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            588999999999999998863

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.45  E-value=0.002  Score=45.01  Aligned_cols=23  Identities=30%  Similarity=0.536  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|.|++|+|||+|++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988743

>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=96.43  E-value=0.0017  Score=50.25  Aligned_cols=91  Identities=13%  Similarity=0.095  Sum_probs=52.2

Q ss_pred             EEEEEEcCCchhhhhc-hhh-----hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC
Q 028507           59 RLQLWDTAGQERFRSL-IPS-----YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV  132 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~-~~~-----~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~  132 (208)
                      .+.++|++|....... ...     ..-..|-.+++.|.....   .+......+....+  + .++++||.|... +  
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~~~--i-t~iilTKlD~~a-~--  283 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEAVK--I-DGIILTKLDADA-R--  283 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHHSC--C-CEEEEECGGGCS-C--
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHhcC--C-CEEEEeCcCCcc-c--
Confidence            3667999996432211 111     122478889999976432   33333344443321  2 366679999522 1  


Q ss_pred             CHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          133 SIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                       .-.+.......+.++.+++  +|+++++
T Consensus       284 -~G~~l~~~~~~~~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          284 -GGAALSISYVIDAPILFVG--VGQGYDD  309 (328)
T ss_dssp             -CHHHHHHHHHHTCCEEEEE--CSSSTTC
T ss_pred             -hhHHHHHHHHHCCCEEEEe--CCCCccc
Confidence             2345566777788888887  6776644

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.43  E-value=0.0011  Score=51.75  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            47899999999999999988654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.43  E-value=0.0019  Score=45.81  Aligned_cols=22  Identities=14%  Similarity=0.291  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|.|++|+||||+.+.|..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988864

>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=96.43  E-value=0.0019  Score=49.45  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=21.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +...|+|+|++|+|||||++.|.+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999999988763

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.42  E-value=0.002  Score=47.26  Aligned_cols=23  Identities=17%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +.+.|+|.|++|+||||+.+.|.
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la   30 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLA   30 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45789999999999999999876

>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=96.41  E-value=0.0019  Score=44.72  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=19.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|.|++|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999988763

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.41  E-value=0.0021  Score=47.92  Aligned_cols=22  Identities=18%  Similarity=0.336  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|.+|+||||+.+.|..
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            5789999999999999998874

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.40  E-value=0.0026  Score=48.03  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +.+.|+|.|++|+||||+.+.|.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45789999999999999999886

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.40  E-value=0.0026  Score=45.30  Aligned_cols=26  Identities=12%  Similarity=0.155  Sum_probs=22.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -..+.|+|+|.+|+||||+.+.|...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            45799999999999999999988643

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.40  E-value=0.0017  Score=51.47  Aligned_cols=22  Identities=23%  Similarity=0.549  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|+|++|+|||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5789999999999999988753

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.40  E-value=0.0027  Score=48.94  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=20.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..+-|+|+|++|+|||||++.|.+
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999988753

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.39  E-value=0.0018  Score=48.07  Aligned_cols=24  Identities=21%  Similarity=0.211  Sum_probs=20.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ....|+++|++|+||||+.+.|..
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            447899999999999999998864

>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=96.38  E-value=0.0018  Score=45.36  Aligned_cols=22  Identities=32%  Similarity=0.363  Sum_probs=19.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4599999999999999988764

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.37  E-value=0.0024  Score=46.74  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .++|+|+|++|+||||+.+.|..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998863

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.37  E-value=0.0021  Score=47.82  Aligned_cols=21  Identities=19%  Similarity=0.284  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|+|+|++|+|||||...|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998863

>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=96.35  E-value=0.0016  Score=50.22  Aligned_cols=23  Identities=17%  Similarity=0.391  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|+.|+|||||++.|.+..
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEEecCCCCHHHHHHHHHhhc
Confidence            46788999999999999999653

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.35  E-value=0.0026  Score=49.27  Aligned_cols=29  Identities=21%  Similarity=0.395  Sum_probs=19.9

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |++++ |+ .-|+|+|++|+|||||...|..
T Consensus         1 ~~~m~-m~-~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            1 MTEMT-KP-FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             ------CC-EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCC-CC-ceEEEECCCcCcHHHHHHHHHH
Confidence            45443 33 4689999999999999988763

>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=96.35  E-value=0.0019  Score=51.64  Aligned_cols=23  Identities=13%  Similarity=0.228  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+..
T Consensus       169 ii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhhc
Confidence            58999999999999999988643

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.31  E-value=0.0021  Score=49.78  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++++|++|+|||||++.+.+.
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4889999999999999988754

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.30  E-value=0.0023  Score=46.43  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -++|+|++|+|||||+..+.+.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4788999999999999988743

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.30  E-value=0.0023  Score=48.16  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++|+|++|+|||||++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            899999999999999988754

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.30  E-value=0.0028  Score=46.98  Aligned_cols=24  Identities=17%  Similarity=0.368  Sum_probs=20.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.+.|+|.|++|+||||+.+.|..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999987754

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.29  E-value=0.0011  Score=51.90  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999988654

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.28  E-value=0.0022  Score=52.69  Aligned_cols=24  Identities=21%  Similarity=0.456  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      ..++|+|+.|+|||||++.+.+--
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            459999999999999999998654

>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=96.24  E-value=0.0025  Score=44.54  Aligned_cols=21  Identities=19%  Similarity=0.393  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -.+|+|+.|+|||||+..+..
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            568999999999999998864

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.23  E-value=0.0025  Score=49.88  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=19.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .--++++|+.|+||||+++.|.+
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHh
Confidence            45688999999999999998763

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.21  E-value=0.0038  Score=45.66  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=21.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +...|+|.|++|+||||+++.|...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4567899999999999999988743

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.20  E-value=0.0033  Score=43.39  Aligned_cols=22  Identities=27%  Similarity=0.395  Sum_probs=19.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -.|+|.|.+|+||||+.+.|..
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            4688999999999999988753

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.19  E-value=0.0023  Score=51.84  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|+|+.|+|||||++.|.+-
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCc
Confidence            46899999999999999988743

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.18  E-value=0.0024  Score=44.46  Aligned_cols=24  Identities=38%  Similarity=0.623  Sum_probs=20.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-.++|.|++|+|||+|++.+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999888643

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.18  E-value=0.0028  Score=49.44  Aligned_cols=24  Identities=13%  Similarity=0.308  Sum_probs=21.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =+++|+|+.|+|||||++.+.+..
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999998764

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.17  E-value=0.0028  Score=47.08  Aligned_cols=23  Identities=17%  Similarity=0.203  Sum_probs=20.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-.|+|+|++|+||||+.+.|..
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            45799999999999999998863

>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=96.16  E-value=0.0028  Score=51.59  Aligned_cols=92  Identities=14%  Similarity=0.116  Sum_probs=48.9

Q ss_pred             EEEEEEEcCCchhhhh-ch---h---h----h-ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           58 VRLQLWDTAGQERFRS-LI---P---S----Y-IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~---~---~----~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                      +.+.|+||+|...... +.   .   .    + ....+-+++|+|.+....  .+ .....+....+  +. .+|+||.|
T Consensus       376 ~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~--al-~~ak~f~~~~~--it-gvIlTKLD  449 (503)
T 2yhs_A          376 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQN--AV-SQAKLFHEAVG--LT-GITLTKLD  449 (503)
T ss_dssp             CSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHH--HH-HHHHHHHHHTC--CS-EEEEECGG
T ss_pred             CCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHH--HH-HHHHHHHhhcC--CC-EEEEEcCC
Confidence            3478999999532111 10   0   0    1 113567888999874321  11 22333433322  33 56679998


Q ss_pred             CCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      -..    ....+...+..++.++.++.  +|+++++
T Consensus       450 ~ta----kgG~~lsi~~~~~~PI~fig--~Ge~vdD  479 (503)
T 2yhs_A          450 GTA----KGGVIFSVADQFGIPIRYIG--VGERIED  479 (503)
T ss_dssp             GCS----CCTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             Ccc----cccHHHHHHHHHCCCEEEEe--cCCChhh
Confidence            522    12345566667788877765  5655543

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=96.16  E-value=0.0035  Score=49.17  Aligned_cols=24  Identities=21%  Similarity=0.437  Sum_probs=21.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      .+.+||+|+|.+|+|||||+.++.
T Consensus        31 ~~~~killlG~~~SGKST~~kq~~   54 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQMR   54 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHHH
Confidence            457999999999999999998764

>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=96.15  E-value=0.0026  Score=48.24  Aligned_cols=23  Identities=9%  Similarity=0.241  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||+..+.+..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            47899999999999999887543

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.14  E-value=0.004  Score=44.79  Aligned_cols=24  Identities=13%  Similarity=0.213  Sum_probs=20.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|+|++|+||||+.+.|..
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999998764

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.11  E-value=0.0037  Score=45.47  Aligned_cols=23  Identities=17%  Similarity=0.216  Sum_probs=20.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-.++|.|++|+|||+|++.+..
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998864

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.10  E-value=0.0033  Score=46.62  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|+|++|+|||+|++.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35899999999999999988753

>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=96.10  E-value=0.0034  Score=45.17  Aligned_cols=22  Identities=18%  Similarity=0.134  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      --++|+|++|+|||||+..+..
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            3578999999999999999987

>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=96.09  E-value=0.0034  Score=45.90  Aligned_cols=22  Identities=23%  Similarity=0.303  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -++|+|++|+|||||+..+...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            5789999999999999998864

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.07  E-value=0.0049  Score=47.46  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+|||||...|..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988864

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.05  E-value=0.004  Score=44.27  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..++|.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999988753

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.97  E-value=0.0039  Score=50.18  Aligned_cols=24  Identities=13%  Similarity=0.260  Sum_probs=21.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =+++|+|++|+|||||++.+.+..
T Consensus       158 q~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          158 QRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            378999999999999999988764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.96  E-value=0.014  Score=44.94  Aligned_cols=23  Identities=26%  Similarity=0.569  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..++|.|++|+|||+|.+.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            46899999999999999988643

>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=95.94  E-value=0.0041  Score=50.58  Aligned_cols=21  Identities=19%  Similarity=0.411  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -++|+|+.|+|||||++.+.+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            578999999999999998864

>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=95.94  E-value=0.0041  Score=49.01  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-.++|+|++|+|||||++.+.+
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34789999999999999998885

>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=95.93  E-value=0.0052  Score=46.65  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..|+|+|++|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=95.91  E-value=0.0063  Score=43.87  Aligned_cols=31  Identities=26%  Similarity=0.306  Sum_probs=22.5

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |+.+..-.-|-|.++|..|+||||+.+.|..
T Consensus         1 ~~~~~~~~~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            1 MAHHHHHHMYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             -----CCSCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcccccceeEEEEECCCCCCHHHHHHHHHH
Confidence            5555555559999999999999999998764

>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=95.91  E-value=0.0041  Score=51.91  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++++|++|+|||||++.+.+-.
T Consensus       370 ~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          370 KTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhhcc
Confidence            368999999999999999887653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.91  E-value=0.0064  Score=50.27  Aligned_cols=24  Identities=13%  Similarity=0.214  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|+.|+|||||++.+.+..
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999998754

>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=95.89  E-value=0.0059  Score=43.49  Aligned_cols=21  Identities=24%  Similarity=0.325  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .|+|.|++|+||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.89  E-value=0.0048  Score=44.49  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=20.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.+.|+|+|++|+||||+.+.|..
T Consensus         2 ~~~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            2 KAINIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             -CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999987754

>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=95.88  E-value=0.0055  Score=41.62  Aligned_cols=19  Identities=21%  Similarity=0.571  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      .+|+|+.|+|||||+.++.
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            5789999999999999875

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.86  E-value=0.0062  Score=51.03  Aligned_cols=24  Identities=17%  Similarity=0.308  Sum_probs=20.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      .++|+|+.|+|||||++.|.+...
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll~  128 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQK  128 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCChHHHHHHHHhcCCC
Confidence            589999999999999999986543

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.85  E-value=0.0077  Score=48.14  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=20.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..-|+|+|++|+||||+.++|...
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            356888999999999999998753

>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=95.84  E-value=0.0051  Score=44.51  Aligned_cols=21  Identities=38%  Similarity=0.520  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -++|.|++|+|||+|++.+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998864

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.84  E-value=0.0065  Score=44.47  Aligned_cols=25  Identities=16%  Similarity=0.283  Sum_probs=21.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+...|+|+|++|+||||+.+.|..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999988764

>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=95.82  E-value=0.0064  Score=50.78  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999988654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.81  E-value=0.0067  Score=50.13  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=20.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      -++|+|+.|+|||||++.+.+...
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~~   50 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEII   50 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCC
Confidence            578999999999999999987543

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.77  E-value=0.004  Score=51.92  Aligned_cols=24  Identities=21%  Similarity=0.239  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++++|++|+|||||++.+.+-.
T Consensus       368 ~~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          368 ETVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            368999999999999999877543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.73  E-value=0.0056  Score=45.98  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|.|++|+|||+|++.+...
T Consensus        52 ~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            46899999999999999988754

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.73  E-value=0.0056  Score=46.34  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=20.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-.++|.|++|+|||+|++.+...
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            357899999999999999988753

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.72  E-value=0.0085  Score=43.63  Aligned_cols=25  Identities=20%  Similarity=0.193  Sum_probs=20.9

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ..+..-|+|.|.+|+||||+++.|.
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~   42 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLA   42 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHH
Confidence            3456779999999999999998876

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.72  E-value=0.0052  Score=44.11  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=18.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -.+++.|+||+|||++..++..
T Consensus        59 n~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           59 NCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999887764

>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=95.71  E-value=0.0062  Score=45.07  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..++|.|++|+|||+|.+.+..
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            4589999999999999998875

>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=95.70  E-value=0.0055  Score=46.08  Aligned_cols=21  Identities=10%  Similarity=0.132  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -++|+|++|+|||||+..+..
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999998874

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.70  E-value=0.0084  Score=50.28  Aligned_cols=25  Identities=16%  Similarity=0.232  Sum_probs=21.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      =.++|+|+.|+|||||++.+.+...
T Consensus       118 e~~~LiG~NGsGKSTLlkiL~Gll~  142 (607)
T 3bk7_A          118 MVVGIVGPNGTGKTTAVKILAGQLI  142 (607)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHhCCCC
Confidence            3689999999999999999987543

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.70  E-value=0.008  Score=46.03  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=20.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +..-|+|+||+|+|||+|...|..
T Consensus         2 ~~~~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            2 KEKLVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCcCCHHHHHHHHHH
Confidence            345688999999999999998864

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.69  E-value=0.0047  Score=51.75  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++++|++|+|||||++.+.+-.
T Consensus       382 ~~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          382 QKVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             CEEEEECCTTSSTTHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCc
Confidence            368999999999999999887644

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=95.69  E-value=0.016  Score=41.17  Aligned_cols=85  Identities=8%  Similarity=0.062  Sum_probs=55.5

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCcccCCCHH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER--GSDVIIVLVGNKTDLVEKRQVSIE  135 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D~~~~~~~~~~  135 (208)
                      +.+.|+|+|+..  .......+..+|.+|++...+.. + ..+...+..+....  .+..++.+|.|+.|....   ...
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~---~~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPL-D-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT---MLN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTT-T-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE---EEH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHH-H-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch---HHH
Confidence            568999999754  33445566789999999988743 4 56666666665443  345677899999985322   123


Q ss_pred             HHHHHHHhcCCeEE
Q 028507          136 EGEAKSRELNVMFI  149 (208)
Q Consensus       136 ~~~~~~~~~~~~~~  149 (208)
                      +..+....++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            44555555665554

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.68  E-value=0.0085  Score=43.30  Aligned_cols=24  Identities=13%  Similarity=0.213  Sum_probs=20.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      |+..-|+|.|++|+||||+++.|.
T Consensus         4 m~g~~i~~eG~~gsGKsT~~~~l~   27 (213)
T 4edh_A            4 MTGLFVTLEGPEGAGKSTNRDYLA   27 (213)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHH
Confidence            567789999999999999999876

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.64  E-value=0.0095  Score=46.10  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=19.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-|+|+|+.|+|||+|...|..
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999988874

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.63  E-value=0.0063  Score=45.34  Aligned_cols=25  Identities=16%  Similarity=0.220  Sum_probs=21.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +.+.|+|.|.+|+||||+.+.|...
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4468899999999999999887643

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.63  E-value=0.0054  Score=51.25  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            68999999999999999887543

>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=95.62  E-value=0.0065  Score=46.66  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|.|++|+|||+|++.+...
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35889999999999999988753

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.59  E-value=0.0078  Score=42.94  Aligned_cols=26  Identities=19%  Similarity=0.308  Sum_probs=21.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      ....|+|+|++|+|||+|...|....
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            34668999999999999999987543

>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=95.59  E-value=0.0069  Score=46.13  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.+++.|++|+|||+|++.+...
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHHH
Confidence            45899999999999999988754

>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=95.57  E-value=0.0066  Score=46.22  Aligned_cols=85  Identities=14%  Similarity=0.058  Sum_probs=47.3

Q ss_pred             EEEEEEEcCCchhhhh-ch---hhhcc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           58 VRLQLWDTAGQERFRS-LI---PSYIR--DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~---~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      ..+.|+||+|...... ..   ...+.  ..+..++|+|++..  ...+..+...+.   .-+. .-+|.||.|....  
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~---~l~~-~giVltk~D~~~~--  254 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFS---SVPV-NQYIFTKIDETTS--  254 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTS---SSCC-CEEEEECTTTCSC--
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHh---cCCC-CEEEEeCCCcccc--
Confidence            4689999999664322 11   11222  36788899988732  233333333222   1112 2455699996432  


Q ss_pred             CCHHHHHHHHHhcCCeEEEee
Q 028507          132 VSIEEGEAKSRELNVMFIETS  152 (208)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~s  152 (208)
                        ...+...+...++++.+++
T Consensus       255 --~g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          255 --LGSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             --CHHHHHHHHTCSCCCSEEC
T ss_pred             --hhHHHHHHHHHCcCEEEEE
Confidence              2355666777788776654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.57  E-value=0.009  Score=49.37  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=20.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      .++|+|+.|+|||||++.+.+...
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~~  319 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEIT  319 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999987543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.55  E-value=0.0068  Score=46.01  Aligned_cols=23  Identities=17%  Similarity=0.141  Sum_probs=18.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-+++.|+||+|||+|.+.+...
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45667799999999999988743

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=95.54  E-value=0.014  Score=41.74  Aligned_cols=31  Identities=26%  Similarity=0.468  Sum_probs=26.3

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |+|..+.+.+-|+|.|.+||||+++.+.+..
T Consensus         3 ~~~~~~~~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B            3 MAPLGGAPRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CCTTBCCCSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ccccccCCCEEEEEECCCCCChHHHHHHHHH
Confidence            7777666778999999999999999887764

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.51  E-value=0.0097  Score=49.89  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=21.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      .++|+|+.|+|||||++.+.+...
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~~  407 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVEE  407 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            578999999999999999987543

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.51  E-value=0.008  Score=47.18  Aligned_cols=19  Identities=26%  Similarity=0.400  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      .+|+|+.|+|||||++.+.
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            5689999999999999876

>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=95.48  E-value=0.0084  Score=45.87  Aligned_cols=92  Identities=17%  Similarity=0.108  Sum_probs=50.5

Q ss_pred             EEEEEEEcCCchhhhh-ch------hhh-----ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           58 VRLQLWDTAGQERFRS-LI------PSY-----IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~------~~~-----~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                      +.+.|+|+||...... +.      ...     -...+.+++|+|++..  .+.+.. ...+....  ++ .-+|.||.|
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~--~~~l~~-a~~~~~~~--~i-~gvVlTk~D  260 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQ-AKIFKEAV--NV-TGIILTKLD  260 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHH-HHHHHHHS--CC-CEEEEECGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCC--HHHHHH-HHHHHhcC--CC-CEEEEeCCC
Confidence            3589999999532111 00      111     1247889999998732  222222 23333322  12 345569999


Q ss_pred             CCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      ....    ...+.......+.|+.+++  .|+.+++
T Consensus       261 ~~~~----gG~~l~~~~~~~~Pi~~i~--~Ge~~~d  290 (306)
T 1vma_A          261 GTAK----GGITLAIARELGIPIKFIG--VGEKAED  290 (306)
T ss_dssp             GCSC----TTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             Cccc----hHHHHHHHHHHCCCEEEEe--CCCChhh
Confidence            5322    2346677778888887776  3444443

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.47  E-value=0.011  Score=48.79  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=21.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      .++|+|+.|+|||||++.+.+...
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~~  337 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVEE  337 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            578999999999999999987543

>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=95.47  E-value=0.007  Score=46.94  Aligned_cols=21  Identities=19%  Similarity=0.384  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      ++|.|++|+||||+++.+.+.
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988763

>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=95.44  E-value=0.0076  Score=47.04  Aligned_cols=23  Identities=17%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|.|++|+|||||++.+...
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988753

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.44  E-value=0.012  Score=44.73  Aligned_cols=22  Identities=23%  Similarity=0.540  Sum_probs=19.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ...++|.|++|+|||+|.+.+.
T Consensus        67 ~~~vll~G~~GtGKT~la~~la   88 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMA   88 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999998665

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.39  E-value=0.0089  Score=43.68  Aligned_cols=21  Identities=24%  Similarity=0.537  Sum_probs=17.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -++|+|++|+|||||+..+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999877653

>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=95.37  E-value=0.0083  Score=46.77  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      --+.|+|++|+|||||+..+....
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999988653

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.37  E-value=0.0094  Score=45.17  Aligned_cols=22  Identities=32%  Similarity=0.558  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -.+++.|++|+|||++.+.+..
T Consensus        51 ~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.35  E-value=0.012  Score=49.35  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=20.4

Q ss_pred             EEEEcCCCCCHHHHHHHhhcCcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      ++|+|+.|+|||||++.+.+...
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            78999999999999999987544

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.35  E-value=0.012  Score=43.21  Aligned_cols=23  Identities=22%  Similarity=0.401  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..|+|.|..|+||||+.+.|...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            56899999999999999988743

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=95.33  E-value=0.042  Score=40.01  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=19.0

Q ss_pred             eeEEEE--cCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFL--GDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vv--G~~~~GKstli~~l~~~   32 (208)
                      =||+|+  |+++.|||+|++++.+.
T Consensus        28 nkilvl~~~~~~~~~~~~~~~lf~~   52 (233)
T 3uc9_A           28 NKILVLSDHPHNFLKTQFLQDLFHC   52 (233)
T ss_dssp             CEEEEEEEGGGHHHHHHHHHHHHCC
T ss_pred             CceEEEecCcccccHHHHHHHHhcc
Confidence            355555  99999999999999976

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=95.33  E-value=0.01  Score=46.43  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|.|++|+|||+|++.+....
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999887543

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.31  E-value=0.0057  Score=46.42  Aligned_cols=24  Identities=13%  Similarity=0.222  Sum_probs=17.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.+-|+|.|++|+||||+.+.|..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999988763

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.31  E-value=0.076  Score=37.98  Aligned_cols=85  Identities=7%  Similarity=-0.031  Sum_probs=56.1

Q ss_pred             EEEEEEEcCCc-hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHH
Q 028507           58 VRLQLWDTAGQ-ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEE  136 (208)
Q Consensus        58 ~~~~i~D~~G~-~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~  136 (208)
                      +.+.|+|+|+. ..  ......+..+|.+|++...+ ..+...+...+..+....  +.++.+|+|+.+....  ....+
T Consensus        68 yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~--~~~~~  140 (209)
T 3cwq_A           68 YQNIVIDTQARPED--EDLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPS--KDGDE  140 (209)
T ss_dssp             CSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTS--CHHHH
T ss_pred             CCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccc--hHHHH
Confidence            56899999985 32  23345567899999999876 456677777777776533  3668889999985320  11344


Q ss_pred             HHHHHHhcCCeEE
Q 028507          137 GEAKSRELNVMFI  149 (208)
Q Consensus       137 ~~~~~~~~~~~~~  149 (208)
                      ..+...+++.+++
T Consensus       141 ~~~~l~~~g~~v~  153 (209)
T 3cwq_A          141 ARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHTTCCBC
T ss_pred             HHHHHHHcCCchh
Confidence            5555555666554

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.28  E-value=0.013  Score=43.80  Aligned_cols=25  Identities=16%  Similarity=0.315  Sum_probs=21.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ....++|.|++|+|||+|.+.+...
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3467899999999999999988754

>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=95.28  E-value=0.0099  Score=46.00  Aligned_cols=21  Identities=38%  Similarity=0.610  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      +++.|++|+||||+++.+...
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            799999999999999988754

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.26  E-value=0.016  Score=43.95  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|+|++|+|||++.+.+...
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHH
Confidence            46899999999999999988753

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.25  E-value=0.012  Score=43.22  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=20.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |+..-|+|.|++|+||||+++.|..
T Consensus        25 ~~~~~i~~eG~~GsGKsT~~~~l~~   49 (236)
T 3lv8_A           25 MNAKFIVIEGLEGAGKSTAIQVVVE   49 (236)
T ss_dssp             -CCCEEEEEESTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4556799999999999999998763

>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=95.25  E-value=0.017  Score=44.22  Aligned_cols=22  Identities=18%  Similarity=0.374  Sum_probs=19.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-|+|+|++|+|||+|...|..
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            4578899999999999998863

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.24  E-value=0.013  Score=45.69  Aligned_cols=22  Identities=18%  Similarity=0.474  Sum_probs=19.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ..+|+|+|++|+||||+...|.
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHH
Confidence            3679999999999999998665

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.22  E-value=0.011  Score=45.59  Aligned_cols=23  Identities=13%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.|+|.|++|+|||+|.+.+...
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            46899999999999999988754

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.16  E-value=0.14  Score=39.09  Aligned_cols=21  Identities=19%  Similarity=0.330  Sum_probs=16.3

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      +++.|++|+|||++++.+...
T Consensus        51 ~L~~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHH
T ss_pred             EEeeCcCCCCHHHHHHHHHHH
Confidence            344566999999999988643

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.09  E-value=0.014  Score=44.61  Aligned_cols=23  Identities=22%  Similarity=0.446  Sum_probs=20.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-.+++.|++|+|||+|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999988764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.08  E-value=0.015  Score=41.98  Aligned_cols=24  Identities=21%  Similarity=0.177  Sum_probs=20.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +..-|+|-|.+|+||||+++.|..
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~   25 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVE   25 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346788999999999999998763

>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=95.07  E-value=0.014  Score=51.40  Aligned_cols=24  Identities=13%  Similarity=0.332  Sum_probs=21.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      .++|+|+.|+|||||++.+.++..
T Consensus       463 ~v~LiGpNGsGKSTLLk~LagG~i  486 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIANGQV  486 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            579999999999999999987654

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.05  E-value=0.014  Score=44.87  Aligned_cols=24  Identities=13%  Similarity=0.292  Sum_probs=20.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ...++|.|++|+|||+|.+.+...
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            356999999999999999988753

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.05  E-value=0.016  Score=40.44  Aligned_cols=24  Identities=17%  Similarity=0.422  Sum_probs=20.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..=+++.|++|+||||+.-.|...
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            345899999999999999988864

>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=95.04  E-value=0.015  Score=41.58  Aligned_cols=20  Identities=20%  Similarity=0.507  Sum_probs=17.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      -.+|+|+.|+||||++.++.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            45788999999999999875

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.04  E-value=0.013  Score=45.28  Aligned_cols=22  Identities=32%  Similarity=0.551  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+++.|++|+|||++++.+...
T Consensus        60 ~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           60 HMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3899999999999999988743

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.03  E-value=0.013  Score=46.89  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -|++.||||+|||+|.+++.+.
T Consensus       208 GiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          208 GVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             EEEEESCTTTTHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998753

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.01  E-value=0.012  Score=46.02  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.++|.|++|+|||+|++.+...
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988743

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=94.97  E-value=0.015  Score=44.77  Aligned_cols=22  Identities=32%  Similarity=0.626  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -++|.|++|+|||+|++.+...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHH
Confidence            5788999999999999998754

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=94.97  E-value=0.0061  Score=45.37  Aligned_cols=21  Identities=19%  Similarity=0.311  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+++.|++|+|||+|++.+..
T Consensus        46 ~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999998874

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=94.97  E-value=0.014  Score=47.45  Aligned_cols=24  Identities=33%  Similarity=0.520  Sum_probs=20.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-+++|+|++|+|||++++.+...
T Consensus       201 ~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          201 KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999987643

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.92  E-value=0.0099  Score=49.22  Aligned_cols=25  Identities=16%  Similarity=0.369  Sum_probs=21.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +...|+|+|++|+|||||.+.|.+.
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHh
Confidence            3467999999999999999988754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.92  E-value=0.015  Score=46.64  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      --|++.||||+|||.|.+++.+.
T Consensus       216 rGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          216 KGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CeeEEECcCCCCHHHHHHHHHHH
Confidence            46899999999999999998754

---

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	208
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-51
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	8e-50
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	6e-47
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	1e-46
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-46
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	5e-46
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	7e-45
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	5e-43
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	8e-43
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	7e-42
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	4e-41
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	7e-40
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	1e-39
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	4e-39
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	9e-39
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	1e-35
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	1e-35
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	4e-35
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	1e-34
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	6e-34
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	8e-34
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	2e-33
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	3e-33
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-32
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-32
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	5e-32
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	1e-31
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	3e-31
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	4e-31
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	5e-31
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	9e-30
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	1e-29
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	3e-29
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	5e-29
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-29
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	3e-28
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	9e-28
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-27
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-27
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	1e-26
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	3e-25
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	3e-24
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-23
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	1e-23
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-23
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	9e-23
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-22
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	2e-22
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-22
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	8e-21
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	1e-18
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	1e-18
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	4e-18
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	1e-16
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	5e-16
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	1e-13
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	1e-09
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	2e-08
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	1e-07
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	1e-07
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	5e-06
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	9e-06
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	9e-06
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	5e-05
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	9e-05
d2qn6a3	205	c.37.1.8 (A:2-206) Initiation factor eIF2 gamma su	1e-04
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	2e-04
d1wb1a4	179	c.37.1.8 (A:1-179) Elongation factor SelB, N-termi	2e-04
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	3e-04
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	6e-04
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	0.002

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  162 bits (410), Expect = 1e-51
 Identities = 137/164 (83%), Positives = 154/164 (93%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KLVFLG+QSVGKTS+ITRFMYD FDNTYQATIGIDFLSKTMYLEDRT+RLQLWDTAGQE
Sbjct: 1   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 60

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRSLIPSYIRDS+ AVVVYD+ +  SF  T+KWID+VRTERGSDVII+LVGNKTDL +K
Sbjct: 61  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 120

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGM 173
           RQVSIEEGE K++ELNVMFIETSAKAG+N+K LFR++AAALPGM
Sbjct: 121 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM 164

>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 =  157 bits (399), Expect = 8e-50
 Identities = 67/161 (41%), Positives = 107/161 (66%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +GD  VGKT ++ RF  D F++T+ +TIGIDF  +T+ L+ + ++LQ+WDTAGQE
Sbjct: 7   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 66

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R +   ++VYD+ + +SF N   WI  +     +DV  +++GNK D+ +K
Sbjct: 67  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 126

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           RQVS E GE  + +  + F+ETSAKA  N++  F  +A  +
Sbjct: 127 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDI 167

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  151 bits (381), Expect = 6e-47
 Identities = 70/186 (37%), Positives = 111/186 (59%), Gaps = 5/186 (2%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +KL+ +G+  VGK+ ++ RF  D + N Y +TIG+DF  KT+ L+ +TV+LQ+WDTAGQE
Sbjct: 7   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 66

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R S   ++VYDV  ++SF     W+ E+     S V+ +LVGNK DL +K
Sbjct: 67  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 126

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL-----PGMETLSSTKQEEM 184
           R V  +  +  +    + F+ETSA    N++  F  +A  +           ++ K+E+ 
Sbjct: 127 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDK 186

Query: 185 VDVNLR 190
            +VNL+
Sbjct: 187 GNVNLK 192

>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 =  149 bits (377), Expect = 1e-46
 Identities = 64/161 (39%), Positives = 105/161 (65%), Gaps = 1/161 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ +GD  VGK+ ++ RF+ DKF+ ++  TIGIDF  KT+ +  + V+LQ+WDTAGQE
Sbjct: 3   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 62

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  +Y R +   ++VYD+   ++F N  +W   V      +  ++LVGNK+D+ E 
Sbjct: 63  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ET 121

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V+ ++GEA ++EL + FIE+SAK   N+  +F  +A  +
Sbjct: 122 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLI 162

>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 =  149 bits (376), Expect = 2e-46
 Identities = 67/161 (41%), Positives = 100/161 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +G+  VGKT ++ RF    F     ATIG+DF+ KT+ +    V+LQ+WDTAGQE
Sbjct: 6   FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE 65

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R ++  ++ YD+   +SF    +W+ E+     + VI VLVGNK DL E+
Sbjct: 66  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 125

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+VS +  E  S   ++ ++ETSAK   N++ LF  +A  L
Sbjct: 126 REVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  148 bits (373), Expect = 5e-46
 Identities = 67/162 (41%), Positives = 102/162 (62%), Gaps = 1/162 (0%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +K++ +GD  VGKT ++ RF    F   T+ +T+GIDF +K + ++   V+LQ+WDTAGQ
Sbjct: 7   FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 66

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           ERFRS+  +Y RD+   +++YDV ++ SF N   W+ E+      DV ++L+GNK D   
Sbjct: 67  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH 126

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           +R V  E+GE  ++E  + F+ETSAK G N+   F  IA  L
Sbjct: 127 ERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 168

>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 =  145 bits (366), Expect = 7e-45
 Identities = 59/161 (36%), Positives = 109/161 (67%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V +GD  VGK+++++RF  ++F+   ++TIG++F ++++ ++ +T++ Q+WDTAGQE
Sbjct: 5   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 64

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R +  +Y R +  A++VYD+A   ++ N  +W+ E+R    S+++I+LVGNK+DL   
Sbjct: 65  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 124

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V  +E  A + + N+ FIETSA    N++  F+ I   +
Sbjct: 125 RAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEI 165

>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 =  140 bits (353), Expect = 5e-43
 Identities = 57/161 (35%), Positives = 101/161 (62%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   KF      TIG++F ++ + +  + ++LQ+WDTAGQE
Sbjct: 5   FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQE 64

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFR++  SY R ++ A++VYD+  R ++ + S W+ + R     + +I+L+GNK DL  +
Sbjct: 65  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 124

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V+ EE +  + E  ++F+E SAK G N++  F + A  +
Sbjct: 125 RDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>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 =  140 bits (352), Expect = 8e-43
 Identities = 59/161 (36%), Positives = 99/161 (61%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +G+ SVGKTS + R+  D F   + +T+GIDF  KT+Y  D+ ++LQ+WDTAGQE
Sbjct: 6   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQE 65

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           R+R++  +Y R +   +++YD+ + +SF     W  +++T    +  ++LVGNK D+ ++
Sbjct: 66  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 125

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R VS E G   +  L   F E SAK   N+K  F ++   +
Sbjct: 126 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVI 166

>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 =  137 bits (346), Expect = 7e-42
 Identities = 61/171 (35%), Positives = 99/171 (57%), Gaps = 3/171 (1%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
            L   K++ +G+  VGK+S++ RF  D FD    ATIG+DF  KT+ ++    +L +WDT
Sbjct: 4   VLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDT 63

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD 125
           AGQERFR+L PSY R +   ++VYDV  R +F+    W++E+ T    + I+ ++     
Sbjct: 64  AGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKI 123

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL---PGM 173
             E R+V   EG   +R+ +++FIE SAK    ++  F ++   +   PG+
Sbjct: 124 DKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGL 174

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  135 bits (341), Expect = 4e-41
 Identities = 61/161 (37%), Positives = 108/161 (67%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +GD  VGK+ ++ +F   +F   +  TIG++F ++ + ++ + ++LQ+WDTAGQE
Sbjct: 4   FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE 63

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            FRS+  SY R ++ A++VYD+  R++F + + W+++ R    S+++I+L+GNK+DL  +
Sbjct: 64  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR 123

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R V  EEGEA +RE  ++F+ETSAK   N++  F   A  +
Sbjct: 124 RDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEI 164

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  132 bits (332), Expect = 7e-40
 Identities = 59/161 (36%), Positives = 102/161 (63%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K + +G+   GK+ ++ +F+  KF +    TIG++F SK + +  + V+LQ+WDTAGQE
Sbjct: 6   FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 65

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RFRS+  SY R ++ A++VYD+ SR+++   + W+ + R     +++I+L GNK DL   
Sbjct: 66  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 125

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           R+V+  E    ++E  +MF+ETSA  G N++  F + A  +
Sbjct: 126 REVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKI 166

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  131 bits (330), Expect = 1e-39
 Identities = 56/163 (34%), Positives = 91/163 (55%), Gaps = 2/163 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +YK+V LG   VGK+++  +F+   F   Y  TI  DF  K + ++     L++ DTAG 
Sbjct: 3   EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGT 61

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLV 127
           E+F S+   YI++    ++VY + ++QSF +     D++   +    V ++LVGNK DL 
Sbjct: 62  EQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE 121

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            +R+VS  EG A + E    F+ETSAK+   +  LF +I   +
Sbjct: 122 SEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} 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: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  130 bits (328), Expect = 4e-39
 Identities = 60/172 (34%), Positives = 98/172 (56%), Gaps = 11/172 (6%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR----------TVR 59
            KL+ LGD  VGKT+ + R+  +KF+  +  T+GIDF  K +    +           V 
Sbjct: 6   IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVH 65

Query: 60  LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIV 118
           LQLWDTAGQERFRSL  ++ RD+   ++++D+ S+QSFLN   W+ +++     +   IV
Sbjct: 66  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 125

Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           L+GNK DL ++R+V+  +    + +  + + ETSA  G N++     +   +
Sbjct: 126 LIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLI 177

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  129 bits (324), Expect = 9e-39
 Identities = 67/165 (40%), Positives = 110/165 (66%)

Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + ++KLV LG+ +VGK+S++ RF+  +F    ++TIG  FL++T+ L+D TV+ ++WDTA
Sbjct: 4   ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTA 63

Query: 67  GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
           GQER+ SL P Y R +  A+VVYD+ + +SF     W+ E++ +   +++I L GNK DL
Sbjct: 64  GQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
             KR V  +E ++ + + +++F+ETSAK   N+  +F  IA  LP
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  121 bits (304), Expect = 1e-35
 Identities = 65/166 (39%), Positives = 103/166 (62%), Gaps = 2/166 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K+V LG+  VGKTS++ R+  +KF++ +  T+G  FL+K + +  + V L +WDTAGQE
Sbjct: 4   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQE 63

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
           RF +L P Y RDS+ A++VYD+    SF     W+ E+R   G+++ + +VGNK DL ++
Sbjct: 64  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 123

Query: 130 RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMET 175
           R VSI+E E+ +  +      TSAK    I+ LF  +   +  +ET
Sbjct: 124 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM--IET 167

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  121 bits (303), Expect = 1e-35
 Identities = 63/166 (37%), Positives = 100/166 (60%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           AL + K+  LGD  VGK+SI+ RF+ D FD     TIG  F++KT+  ++   +  +WDT
Sbjct: 1   ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDT 60

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD 125
           AG ERFR+L P Y R S+ A++VYD+   ++F     W+ E+R      +++ + GNK D
Sbjct: 61  AGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCD 120

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           L + R+V   + +  +  ++ +F+ETSAK   NI  LF +I+  +P
Sbjct: 121 LTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 166

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score =  120 bits (300), Expect = 4e-35
 Identities = 54/166 (32%), Positives = 99/166 (59%), Gaps = 2/166 (1%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           +LA +K++ +G   VGK+++  +FMYD+F   Y+ T   D   K + L+   V++ + DT
Sbjct: 1   SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDT 59

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS-DVIIVLVGNKT 124
           AGQE + ++  +Y R     + V+ +   +SF  T+ + +++   +   +V  +LVGNK+
Sbjct: 60  AGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKS 119

Query: 125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           DL +KRQVS+EE + ++ + NV ++ETSAK   N+  +F  +   +
Sbjct: 120 DLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  118 bits (297), Expect = 1e-34
 Identities = 63/166 (37%), Positives = 95/166 (57%), Gaps = 6/166 (3%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ LGD  VGK+S++ R++ +KFD     TIG++FL+K + ++   V +Q+WDTAGQE
Sbjct: 7   FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQE 66

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVR----TERGSDVIIVLVGNKTD 125
           RFRSL   + R S   ++ + V   QSF N S W  E       +       V++GNK D
Sbjct: 67  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID 126

Query: 126 LVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRKIAAAL 170
           + E RQVS EE +A  R+  +  + ETSAK   N+   F +    +
Sbjct: 127 ISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  117 bits (292), Expect = 6e-34
 Identities = 56/163 (34%), Positives = 93/163 (57%), Gaps = 5/163 (3%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           +K++ +GD +VGKT +  RF   +F +  +ATIG+DF  + + ++   +++QLWDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 62

Query: 70  RFRSL-IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS-DVIIVLVGNKTDLV 127
           RFR   +  Y R+    V VYD+ +  SF +   WI+E +    + D+  +LVGNK DL 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR 122

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKA---GFNIKPLFRKIA 167
              QV  +  +  +   ++   ETSAK      +++ +F  +A
Sbjct: 123 SAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA 165

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (291), Expect = 8e-34
 Identities = 46/165 (27%), Positives = 88/165 (53%), Gaps = 3/165 (1%)

Query: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66
           + +YKLV +G   VGK+++  + + + F + Y  TI  D   K + ++  T  L + DTA
Sbjct: 1   MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTA 59

Query: 67  GQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTD 125
           GQE + ++   Y+R     + V+ + + +SF +  ++ ++++  +   DV +VLVGNK D
Sbjct: 60  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            +  R V   + +  +R   + +IETSAK    ++  F  +   +
Sbjct: 120 -LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  115 bits (288), Expect = 2e-33
 Identities = 72/164 (43%), Positives = 105/164 (64%), Gaps = 3/164 (1%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KLV LG+ +VGK+SI+ RF+ + F    + TIG  FL++ + + + TV+ ++WDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL---V 127
           F SL P Y R++  A+VVYDV   QSF+    W+ E+  +   D+II LVGNK D+    
Sbjct: 65  FASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEG 124

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
            +R+V+ EEGE  + E  ++F ETSAK G N+  +F  I   +P
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIP 168

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  115 bits (289), Expect = 3e-33
 Identities = 47/174 (27%), Positives = 76/174 (43%), Gaps = 14/174 (8%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K V +GD +VGKT ++  +  +KF + Y  T+  D  + T+ +      L L+DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            +  L P     + V +V + V S  SF N  +      T        +LVG + DL + 
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD 122

Query: 130 RQV------------SIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKIAAAL 170
                          + E  E  +R+L  + ++E SA     +K +F +   A 
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  114 bits (285), Expect = 1e-32
 Identities = 47/174 (27%), Positives = 80/174 (45%), Gaps = 14/174 (8%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K V +GD +VGKT ++  +  + F   Y  T+  D  S  + ++ + V L LWDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK 129
            +  L P     + V+++ + + S  SF N              +  I+LVG K DL + 
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD 124

Query: 130 RQVSIE------------EGEAKSRELN-VMFIETSAKAGFNIKPLFRKIAAAL 170
           +    +            +G A ++E+  V ++E SA     +K +F +   A+
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (282), Expect = 2e-32
 Identities = 56/163 (34%), Positives = 92/163 (56%), Gaps = 2/163 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           KY+LV +G   VGK+++  +F+   F   Y  TI  D  +K   ++DR  RL + DTAGQ
Sbjct: 5   KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQ 63

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE-VRTERGSDVIIVLVGNKTDLV 127
           E F ++   Y+R     ++V+ V  R SF    K+  + +R +   +  ++L+GNK DL 
Sbjct: 64  EEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLD 123

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            +RQV+ EEG+  +R+L V ++E SAK   N+   F ++   +
Sbjct: 124 HQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVI 166

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  112 bits (281), Expect = 5e-32
 Identities = 45/182 (24%), Positives = 82/182 (45%), Gaps = 14/182 (7%)

Query: 1   MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL 60
           MA        K V +GD +VGKT ++  +  D F   Y  T+  D  + ++ +  +   L
Sbjct: 1   MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLL 59

Query: 61  QLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
            L+DTAGQE +  L P     + V ++ + V +  SF N  +       E   +V  +L+
Sbjct: 60  GLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLI 119

Query: 121 GNKTDLVEKRQ------------VSIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKIA 167
           G + DL +  +            + +E+G+  ++E+    ++E SA     +K +F +  
Sbjct: 120 GTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAI 179

Query: 168 AA 169
            A
Sbjct: 180 IA 181

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  110 bits (276), Expect = 1e-31
 Identities = 51/163 (31%), Positives = 81/163 (49%), Gaps = 2/163 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
            +KLV +G   VGK+++  +F+   F + Y      D  +K   ++    RL + DTAGQ
Sbjct: 6   THKLVVVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDILDTAGQ 64

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLV 127
           E F ++   Y+R     ++V+ +  RQSF    K   ++   +  D   +VLVGNK DL 
Sbjct: 65  EEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE 124

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            +RQV   E  A     +V + E SAK   N+   F ++  A+
Sbjct: 125 SQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 167

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  110 bits (274), Expect = 3e-31
 Identities = 46/175 (26%), Positives = 74/175 (42%), Gaps = 14/175 (8%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + KLV +GD + GKT ++     D+F   Y  T+  +     + ++ + V L LWDTAG 
Sbjct: 2   RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGL 60

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           E +  L P    D+ V ++ + + S  S  N  +           +V I+LVGNK DL  
Sbjct: 61  EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRN 120

Query: 129 KRQV------------SIEEGEAKSRELNVM-FIETSAKAGFNIKPLFRKIAAAL 170
                             EEG   +  +    ++E SAK    ++ +F     A 
Sbjct: 121 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAA 175

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  110 bits (275), Expect = 4e-31
 Identities = 64/177 (36%), Positives = 99/177 (55%), Gaps = 4/177 (2%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ LGD  VGKTS++ +++  KF N Y+ATIG DFL+K + ++DR V +Q+WDTAGQE
Sbjct: 3   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 62

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS----DVIIVLVGNKTD 125
           RF+SL  ++ R +   V+V+DV +  +F     W DE   +       +   V++GNK D
Sbjct: 63  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 122

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQE 182
           L  ++  +         + N+ + ETSAK   N++  F+ IA      ET      E
Sbjct: 123 LENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNE 179

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  109 bits (273), Expect = 5e-31
 Identities = 50/164 (30%), Positives = 92/164 (56%), Gaps = 3/164 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +YKLV LG   VGK+++  +F+   F   Y  TI  D   K + ++ +   L++ DTAG 
Sbjct: 3   EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGT 61

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWID-EVRTERGSDVIIVLVGNKTDLV 127
           E+F ++   Y+++     +VY + ++ +F +     +  +R +   DV ++LVGNK DL 
Sbjct: 62  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE 121

Query: 128 EKRQVSIEEGEAKSRE-LNVMFIETSAKAGFNIKPLFRKIAAAL 170
           ++R V  E+G+  +R+  N  F+E+SAK+  N+  +F  +   +
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  106 bits (265), Expect = 9e-30
 Identities = 41/176 (23%), Positives = 81/176 (46%), Gaps = 15/176 (8%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           K K+V +GD   GKT+++  F  D F   Y  T+  +  + +  ++ + + L LWDT+G 
Sbjct: 2   KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGS 60

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
             + ++ P    DS   ++ +D++  ++  +  K       E   +  ++LVG K+DL  
Sbjct: 61  PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT 120

Query: 129 ------------KRQVSIEEGEAKSRELNVM-FIETSAKAGFN-IKPLFRKIAAAL 170
                       +  VS ++G   ++++    +IE SA    N ++ +F     A 
Sbjct: 121 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC 176

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  105 bits (263), Expect = 1e-29
 Identities = 49/168 (29%), Positives = 89/168 (52%), Gaps = 3/168 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++KLV +GD   GKT+ + R +  +F+  Y AT+G++      +     ++  +WDTAGQ
Sbjct: 3   QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 62

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE 128
           E+F  L   Y   +  A++++DV SR ++ N   W  ++      ++ IVL GNK D+ +
Sbjct: 63  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKD 121

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
           ++  +        R+ N+ + + SAK+ +N +  F  +A  L G   L
Sbjct: 122 RKVKAKSIVFH--RKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 167

>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 =  105 bits (261), Expect = 3e-29
 Identities = 60/157 (38%), Positives = 92/157 (58%), Gaps = 1/157 (0%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V +G+ +VGK+S+I R+    F   Y+ TIG+DFL + + + D  VRL LWDTAGQE 
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 63

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR 130
           F ++  +Y R +   V+V+    R+SF   S W ++V  E G D+   LV NK DL++  
Sbjct: 64  FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDS 122

Query: 131 QVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            +  EE E  ++ L + F  TS K   N+  +F+ +A
Sbjct: 123 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLA 159

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  104 bits (259), Expect = 5e-29
 Identities = 50/160 (31%), Positives = 85/160 (53%), Gaps = 3/160 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YKLV +GD  VGK+++  +F    F   Y  TI  D   K   ++++   L + DTAGQE
Sbjct: 5   YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTI-EDSYLKHTEIDNQWAILDVLDTAGQE 63

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEV-RTERGSDVIIVLVGNKTDLVE 128
            F ++   Y+R     ++VY V  + SF +  ++   + R +      ++LV NK DL+ 
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 123

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAG-FNIKPLFRKIA 167
            R+V+ ++G+  + + N+ +IETSAK    N+   F  + 
Sbjct: 124 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLV 163

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} 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: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score =  103 bits (257), Expect = 7e-29
 Identities = 27/164 (16%), Positives = 63/164 (38%), Gaps = 9/164 (5%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           +++ +G  + GKT+I+ +    +       T           +E + +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIV-----TTIPTIGFNVETVEYKNISFTVWDVGGQDK 56

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV----GNKTDL 126
            R L   Y +++   + V D   R+      + +  +  E      ++LV     +  + 
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           +   +++ + G    R  N     T A +G  +      ++  L
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  102 bits (254), Expect = 3e-28
 Identities = 59/168 (35%), Positives = 92/168 (54%), Gaps = 7/168 (4%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRL-QLWDTAGQ 68
            K++ LGD  VGKTS++ R++ DK+   Y+ATIG DFL+K + ++   V   Q+WDTAGQ
Sbjct: 3   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 62

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW----IDEVRTERGSDVIIVLVGNKT 124
           ERF+SL  ++ R +   V+VYDV +  SF N   W    +             V++GNK 
Sbjct: 63  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKI 122

Query: 125 DLVEKRQVSIEEGEAKSREL--NVMFIETSAKAGFNIKPLFRKIAAAL 170
           D  E +++  E+   +  +   ++    TSAK   N+   F +IA + 
Sbjct: 123 DAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 170

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: 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]

 Score =  101 bits (252), Expect = 9e-28
 Identities = 36/166 (21%), Positives = 67/166 (40%), Gaps = 9/166 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ LG    GKT+I+ R    +   T   TIG +       L  + ++L +WD  GQ
Sbjct: 17  ELRILILGLDGAGKTTILYRLQIGEVVTTKP-TIGFNV----ETLSYKNLKLNVWDLGGQ 71

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDL- 126
              R     Y  D++  + V D   +      SK +  +  E    D  +++  NK D  
Sbjct: 72  TSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQP 131

Query: 127 --VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
             +   +VS E    + ++ +   + +SA  G  I      +   +
Sbjct: 132 GALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 177

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score =  100 bits (249), Expect = 2e-27
 Identities = 34/166 (20%), Positives = 71/166 (42%), Gaps = 9/166 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ LG  + GKT+I+ +    +   T      + F  +T+    + V+  +WD  GQ
Sbjct: 12  EMRILMLGLDAAGKTTILYKLKLGQSVTTIP---TVGFNVETVT--YKNVKFNVWDVGGQ 66

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDL- 126
           ++ R L   Y   +   + V D A R       + +  +  +R   D II++  NK DL 
Sbjct: 67  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 126

Query: 127 --VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
             ++  ++  + G  + R+ N     + A +G  +      + +  
Sbjct: 127 DAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  100 bits (248), Expect = 2e-27
 Identities = 48/160 (30%), Positives = 80/160 (50%), Gaps = 3/160 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           Y++   G   VGK+S++ RF+   F  +Y  T+   +  + +  +     LQ+ DT G  
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSH 61

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLV 127
           +F ++    I      ++VY + SRQS        +++   +G    + I+LVGNK D  
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
             R+V   E EA +R     F+ETSAK   N+K LF+++ 
Sbjct: 122 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELL 161

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 98.2 bits (243), Expect = 1e-26
 Identities = 54/165 (32%), Positives = 83/165 (50%), Gaps = 4/165 (2%)

Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           A+ KL   G   VGK++++ RF+  +F   Y  T+   +      ++D  V +++ DTAG
Sbjct: 1   AEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAG 59

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDL 126
           QE        ++R     V+VYD+  R SF       + +   +   +V ++LVGNK DL
Sbjct: 60  QEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADL 118

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAG-FNIKPLFRKIAAAL 170
              RQVS EEGE  + EL   F E SA  G  NI  +F ++   +
Sbjct: 119 DHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREV 163

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [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: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 95.1 bits (235), Expect = 3e-25
 Identities = 29/166 (17%), Positives = 64/166 (38%), Gaps = 9/166 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           ++K++ +G  + GKT+I+ +F  ++  +T               +     R  +WD  GQ
Sbjct: 15  EHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVE-----EIVINNTRFLMWDIGGQ 69

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDL- 126
           E  RS   +Y  ++   +VV D   R+    T + + ++          +++  NK D+ 
Sbjct: 70  ESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVK 129

Query: 127 --VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
             +   ++S        ++         A  G  +      + + L
Sbjct: 130 ECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 92.1 bits (227), Expect = 3e-24
 Identities = 53/160 (33%), Positives = 86/160 (53%), Gaps = 2/160 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
             K+  LG +SVGK+S+  +F+  +F ++Y  TI  +  +K + +  +   LQL DTAGQ
Sbjct: 4   SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI-ENTFTKLITVNGQEYHLQLVDTAGQ 62

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLV 127
           + +     +Y  D +  ++VY V S +SF        ++        + I+LVGNK DL 
Sbjct: 63  DEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLH 122

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
            +R +S EEG+A +   N  F+E+SAK       +FR+I 
Sbjct: 123 MERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 162

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: 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]

 Score = 90.8 bits (224), Expect = 1e-23
 Identities = 35/163 (21%), Positives = 68/163 (41%), Gaps = 9/163 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ LG  + GKT+++ +   +   +    T G +  S       +  +L +WD  GQ
Sbjct: 16  EVRILLLGLDNAGKTTLLKQLASEDISHITP-TQGFNIKSVQS----QGFKLNVWDIGGQ 70

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLV 127
            + R    SY  ++ + + V D A R+ F  T + + E+  E + S V +++  NK DL+
Sbjct: 71  RKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLL 130

Query: 128 EKRQVSI---EEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
                S           R+        SA  G  ++     + 
Sbjct: 131 TAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVC 173

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 90.6 bits (223), Expect = 1e-23
 Identities = 47/162 (29%), Positives = 78/162 (48%), Gaps = 3/162 (1%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
           YK++ LG   VGK+++   F   +               +++ ++     L ++D   Q+
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVEDGPEA--EAAGHTYDRSIVVDGEEASLMVYDIWEQD 59

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKW-IDEVRTERGSDVIIVLVGNKTDLVE 128
             R L    +      V+VY V  + SF   S+  +   R  +  DV I+LVGNK+DLV 
Sbjct: 60  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 119

Query: 129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            R+VS++EG A +   +  FIETSA    N++ LF  +   +
Sbjct: 120 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 161

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 89.7 bits (221), Expect = 2e-23
 Identities = 38/166 (22%), Positives = 66/166 (39%), Gaps = 9/166 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +L+ LG  + GKT+I+ +F  +  D     TI          LE R  +L +WD  GQ
Sbjct: 2   ELRLLMLGLDNAGKTTILKKFNGEDVD-----TISPTLGFNIKTLEHRGFKLNIWDVGGQ 56

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE-VRTERGSDVIIVLVGNKTDLV 127
           +  RS   +Y   +   + V D A RQ   +  + +   +  ER +   +++  NK DL 
Sbjct: 57  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP 116

Query: 128 EKRQVSI---EEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
                +           R  +      SA  G ++ P    +   +
Sbjct: 117 GALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDI 162

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {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: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 88.5 bits (218), Expect = 9e-23
 Identities = 35/183 (19%), Positives = 75/183 (40%), Gaps = 12/183 (6%)

Query: 6   ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT 65
           ++ + +L  LGD   GK+S+I RF+   +          +   K M ++ +T  + + + 
Sbjct: 2   SIPELRLGVLGDARSGKSSLIHRFLTGSYQVLE--KTESEQYKKEMLVDGQTHLVLIREE 59

Query: 66  AGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD 125
           AG    +     +         + D  S Q+       +  +R E    + + LVG +  
Sbjct: 60  AGAPDAK--FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDR 117

Query: 126 LVEK--RQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQE 182
           +     R V      A   ++    + ET A  G N+  +F+++A  +     ++  KQ+
Sbjct: 118 ISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKV-----VTLRKQQ 172

Query: 183 EMV 185
           +++
Sbjct: 173 QLL 175

>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 = 87.8 bits (216), Expect = 1e-22
 Identities = 34/163 (20%), Positives = 73/163 (44%), Gaps = 8/163 (4%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +L  +G Q  GKT+ +      +F+     T+G +       +    V ++LWD  GQ
Sbjct: 2   EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNM----RKITKGNVTIKLWDIGGQ 57

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDL- 126
            RFRS+   Y R  S  V + D A ++    +   +  +  + +   + ++++GNK DL 
Sbjct: 58  PRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLP 117

Query: 127 --VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
             ++++++  +   +  ++  +     S K   NI    + + 
Sbjct: 118 GALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLI 160

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: 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]

 Score = 87.5 bits (215), Expect = 2e-22
 Identities = 43/165 (26%), Positives = 78/165 (47%), Gaps = 3/165 (1%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
            Y++V +G+Q VGK+++   F       ++    +G D   +T+ ++  +  + L D   
Sbjct: 3   YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWE 62

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSK--WIDEVRTERGSDVIIVLVGNKTD 125
            +     +  +      A ++    + ++    +    I   R  +  D+ I+LVGNK+D
Sbjct: 63  NKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSD 122

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           LV  R+VS+ EG A +   +  FIETSA    N+K LF  I   +
Sbjct: 123 LVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 167

>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 = 87.1 bits (214), Expect = 2e-22
 Identities = 32/168 (19%), Positives = 59/168 (35%), Gaps = 16/168 (9%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           KL+FLG  + GKT+++     D+      AT+   +   +  L    ++   +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRL-----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGS-DVIIVLVGNKTDLVEK 129
            R L   Y  + +  V + D A  + F      +D +       DV  V++GNK D    
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 130 RQVS----------IEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA 167
              +              +    +  V     S          F+ ++
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLS 164

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} 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: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 83.2 bits (204), Expect = 8e-21
 Identities = 30/166 (18%), Positives = 57/166 (34%), Gaps = 9/166 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + +++ LG    GKT+I+ R    +   T               +  + ++ Q+WD  G 
Sbjct: 5   EMRILILGLDGAGKTTILYRLQVGEVVTTIP-----TIGFNVETVTYKNLKFQVWDLGGL 59

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD-VIIVLVGNKTDLV 127
              R     Y  ++   + V D   R     +   +  +  E      I+V+  NK D+ 
Sbjct: 60  TSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDME 119

Query: 128 EKRQVS---IEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           +    S      G    ++      +TSA  G  +      +   L
Sbjct: 120 QAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 165

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} 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: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 77.8 bits (190), Expect = 1e-18
 Identities = 32/178 (17%), Positives = 60/178 (33%), Gaps = 21/178 (11%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
             KLVFLG  + GKT+++     D+                +  L    +    +D  G 
Sbjct: 13  TGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLH-----PTSEELTIAGMTFTTFDLGGH 67

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE-VRTERGSDVIIVLVGNKTDLV 127
            + R +  +Y+   +  V + D A  +  L + + +D  +  E  ++V I+++GNK D  
Sbjct: 68  IQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRP 127

Query: 128 EKRQVS---------------IEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           E                          +     +     S          FR +A  +
Sbjct: 128 EAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 77.7 bits (190), Expect = 1e-18
 Identities = 25/196 (12%), Positives = 56/196 (28%), Gaps = 43/196 (21%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + KL+ LG    GK++ I +            T GI      +         ++ D  GQ
Sbjct: 2   ELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEYPFDLQSVIF----RMVDVGGQ 55

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQS-----------FLNTSKWIDEVRTERGSDVII 117
              R        + +  + +  ++                 + + +   +      +  +
Sbjct: 56  RSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSV 115

Query: 118 VLVGNKTDLVEKRQVSIEEGE--------------------------AKSRELNVMFIET 151
           +L  NK DL+E++ +     +                              +  +    T
Sbjct: 116 ILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFT 175

Query: 152 SAKAGFNIKPLFRKIA 167
            A    NI+ +F  + 
Sbjct: 176 CATDTENIRFVFAAVK 191

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 76.9 bits (188), Expect = 4e-18
 Identities = 28/170 (16%), Positives = 54/170 (31%), Gaps = 20/170 (11%)

Query: 10  YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 69
            K++ LG    GK++ + +    +  +    T GI         E + V  ++ D  GQ 
Sbjct: 3   VKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYD----FEIKNVPFKMVDVGGQR 55

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDE-----------VRTERGSDVIIV 118
             R          +  + +   +     L   +  +            V     S+V I+
Sbjct: 56  SERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSII 115

Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA 168
           L  NKTDL+E++   +   +               +    +   FR    
Sbjct: 116 LFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQK--FLVECFRGKRR 163

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: 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]

 Score = 72.9 bits (178), Expect = 1e-16
 Identities = 23/140 (16%), Positives = 46/140 (32%), Gaps = 19/140 (13%)

Query: 8   AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 67
           A ++L+ LG    GK++I+ +            T GI         +   V   ++D  G
Sbjct: 5   ATHRLLLLGAGESGKSTIVKQM----RILHVVLTSGIFETK----FQVDKVNFHMFDVGG 56

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWI-----------DEVRTERGSDVI 116
           Q   R        D +  + V   +S    +                           + 
Sbjct: 57  QRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTIS 116

Query: 117 IVLVGNKTDLVEKRQVSIEE 136
           ++L  NK DL+ ++ ++ + 
Sbjct: 117 VILFLNKQDLLAEKVLAGKS 136

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: 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]

 Score = 71.1 bits (173), Expect = 5e-16
 Identities = 26/196 (13%), Positives = 55/196 (28%), Gaps = 46/196 (23%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           + KL+ LG    GK++I+ +              GI       +   + +  +++D  GQ
Sbjct: 2   EVKLLLLGAGESGKSTIVKQMKIIHEA-----GTGI----VETHFTFKDLHFKMFDVGGQ 52

Query: 69  ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSK-----------WIDEVRTERGSDVII 117
              R          +  +    ++     L   +           +      +  +D  I
Sbjct: 53  RSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSI 112

Query: 118 VLVGNKTDLVEKRQVSIEEGEA--------------------------KSRELNVMFIET 151
           +L  NK DL E++                                   +     +    T
Sbjct: 113 ILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFT 172

Query: 152 SAKAGFNIKPLFRKIA 167
            A    N++ +F  + 
Sbjct: 173 CATDTKNVQFVFDAVT 188

>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 = 65.0 bits (157), Expect = 1e-13
 Identities = 26/192 (13%), Positives = 60/192 (31%), Gaps = 6/192 (3%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
            ++F+G    GKT +  R +  ++ +T   +I        +          +     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 71  FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSK----WIDEVRTERGSDVIIVLVGNKTDL 126
              L+  +   +   V V D A+ Q  +         +        +   +++  NK D+
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTKQEEMVD 186
              +   + + +   +ELN + +  SA                  G E   S    ++  
Sbjct: 121 AMAKSAKLIQ-QQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEF 179

Query: 187 VNLRSTTGNASQ 198
           +   +  G    
Sbjct: 180 LECSAKGGRGDT 191

>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 = 53.5 bits (127), Expect = 1e-09
 Identities = 25/176 (14%), Positives = 61/176 (34%), Gaps = 25/176 (14%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
           +  ++  G Q+ GKTS++T    D    T  +             +     + L D  G 
Sbjct: 3   QPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQE------PLSAADYDGSGVTLVDFPGH 56

Query: 69  ERFRSLIPSYIRDSSVA-----VVVYDVASRQSFLNTSKWIDEVRTE----RGSDVIIVL 119
            + R  +  Y++  +        +V      +    T++++ ++ +       + + I++
Sbjct: 57  VKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILI 116

Query: 120 VGNKTDLVEKRQVSIEEGEAKSRELN---------VMFIETSAKAGFNIKPLFRKI 166
             NK++L   R  S  + +A   E+          +  +E         +     +
Sbjct: 117 ACNKSELFTARPPSKIK-DALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVL 171

>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 = 49.7 bits (117), Expect = 2e-08
 Identities = 31/181 (17%), Positives = 61/181 (33%), Gaps = 24/181 (13%)

Query: 13  VFLGDQSVGKTSIITRF------------------MYDKFDNTYQATIGIDFLSKTMYLE 54
           +F G  +VGK+++I R                     +  ++      G  F+       
Sbjct: 4   IFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKEV 63

Query: 55  DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD 114
              ++ ++            +   + D   A  +     ++  +       +   E    
Sbjct: 64  QERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP 123

Query: 115 VIIVLVGNKTDLVEKRQVSI----EEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            I+    NK D ++  Q  I    E+ E    E++ +FI  SAK G NI+ L  +I   +
Sbjct: 124 TIVA--VNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVI 181

Query: 171 P 171
            
Sbjct: 182 R 182

>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 = 47.4 bits (111), Expect = 1e-07
 Identities = 28/165 (16%), Positives = 55/165 (33%), Gaps = 9/165 (5%)

Query: 13  VFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR 72
             +G  +VGK++++   +  K                   L +   ++   DT G  +  
Sbjct: 9   AIVGKPNVGKSTLLNNLLGVKVAPI-SPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPM 67

Query: 73  SLIPSYIRDS------SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
             +  ++          V  VV+ V  R       + +          V I+LVGNK D 
Sbjct: 68  DALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDA 127

Query: 127 VEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
            +  + +++       E     +  SA     +  L   + A +P
Sbjct: 128 AKYPEEAMKAYHELLPEAEPRML--SALDERQVAELKADLLALMP 170

>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 = 47.4 bits (111), Expect = 1e-07
 Identities = 24/167 (14%), Positives = 53/167 (31%), Gaps = 15/167 (8%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+V  G  + GK+S++      +         G        ++    + L + DTAG   
Sbjct: 3   KVVIAGRPNAGKSSLLNALAGREAAIVTD-IAGTTRDVLREHIHIDGMPLHIIDTAGLRE 61

Query: 71  FRSLIPSYIRDSSVAVV-------VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNK 123
               +     + +   +            +    ++ ++   E      + + I +V NK
Sbjct: 62  ASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNK 121

Query: 124 TDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAAL 170
            D+  +           S       I  SA+ G  +  L   +  ++
Sbjct: 122 ADITGET-------LGMSEVNGHALIRLSARTGEGVDVLRNHLKQSM 161

>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 = 43.1 bits (100), Expect = 5e-06
 Identities = 22/166 (13%), Positives = 47/166 (28%), Gaps = 11/166 (6%)

Query: 14  FLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ----E 69
            +G  + GK+S++                 +   +  +       R  L D  G      
Sbjct: 6   LVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSP-NLGVVEVSEEERFTLADIPGIIEGAS 64

Query: 70  RFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWI----DEVRTERGSDVIIVLVGNKTD 125
             + L   ++R  +   V+  V         +                    ++  NK D
Sbjct: 65  EGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVD 124

Query: 126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           L+E+    ++          +  +  SA  G  +  L   + A + 
Sbjct: 125 LLEEEA--VKALADALAREGLAVLPVSALTGAGLPALKEALHALVR 168

>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 = 42.5 bits (98), Expect = 9e-06
 Identities = 21/169 (12%), Positives = 48/169 (28%), Gaps = 10/169 (5%)

Query: 9   KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 68
             ++ F G  + GK+S +      K       T G   L     + D    + L      
Sbjct: 16  GIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYA 75

Query: 69  ERFRSLIPSY------IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGN 122
           E    +   +        +   ++    V               +     S++ ++++  
Sbjct: 76  EVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLT 135

Query: 123 KTDLVEKRQVSIEEGEAKSREL----NVMFIETSAKAGFNIKPLFRKIA 167
           K D +       +    +   L    +V     S+     +  L +K+ 
Sbjct: 136 KADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLD 184

>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 = 42.4 bits (98), Expect = 9e-06
 Identities = 22/164 (13%), Positives = 55/164 (33%), Gaps = 6/164 (3%)

Query: 13  VFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT-----AG 67
             +G  +VGK++++ + +  K   T +           ++ E     + +          
Sbjct: 9   AIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEK 68

Query: 68  QERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV 127
           +   R +  +         +V  V     +    + +   +   G   +I+ V    ++ 
Sbjct: 69  RAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLN-KLREGKAPVILAVNKVDNVQ 127

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           EK  +        S+   +  +  SA+ G N+  +   +   LP
Sbjct: 128 EKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLP 171

>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 = 40.1 bits (92), Expect = 5e-05
 Identities = 26/164 (15%), Positives = 54/164 (32%), Gaps = 8/164 (4%)

Query: 13  VFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR 72
           + +G  +VGK+++  + +  K     +   G+        +E      +L DT G     
Sbjct: 4   LIVGRPNVGKSTLFNKLVKKKKAIV-EDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNP 62

Query: 73  SLIPSYIRDSSVAVVVYDV-----ASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV 127
             I S         ++ +              T +        R S V  +LV NK + +
Sbjct: 63  QDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENL 122

Query: 128 EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
            + +  ++           + +  SA+   N+  +   I   L 
Sbjct: 123 REFEREVKPELYSLGFGEPIPV--SAEHNINLDTMLETIIKKLE 164

>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 = 39.7 bits (91), Expect = 9e-05
 Identities = 37/180 (20%), Positives = 61/180 (33%), Gaps = 18/180 (10%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           K+  +G  +VGK+++    +  +         G         +     +    DTAG  R
Sbjct: 10  KVAIVGRPNVGKSTLFNAILNKERALV-SPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRR 68

Query: 71  FRSLIPSYIRD----------SSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
              + P  +                VVV  + + Q      + +  +   RG   ++  V
Sbjct: 69  KSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVV--V 126

Query: 121 GNKTDLVEKRQVSIEEGEAKSREL-----NVMFIETSAKAGFNIKPLFRKIAAALPGMET 175
            NK DLV  R+   +E     RE          I TSA  G+NI  +   +  A     T
Sbjct: 127 FNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASYTT 186

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]} Length = 205

class: 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]

 Score = 39.2 bits (90), Expect = 1e-04
 Identities = 27/180 (15%), Positives = 49/180 (27%), Gaps = 14/180 (7%)

Query: 4   VSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQA-------TIGIDFLSKTMYLEDR 56
           V A+         ++     +I   +                  T        +      
Sbjct: 25  VQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKF 84

Query: 57  TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI 116
             R+   D  G E   + + S       A++V           T +    +         
Sbjct: 85  LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKN 142

Query: 117 IVLVGNKTDLV-----EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALP 171
           +++V NK D+V       +   I++    +   NV  I  SA    NI  L   I   + 
Sbjct: 143 LIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIK 202

>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 = 38.4 bits (88), Expect = 2e-04
 Identities = 32/168 (19%), Positives = 62/168 (36%), Gaps = 25/168 (14%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           ++V +G  +VGK++++ R + +          G      +  +  R +  ++ DTAG   
Sbjct: 2   RMVIVGKPNVGKSTLLNRLLNEDRAIVTD-IPGTTRDVISEEIVIRGILFRIVDTAG--- 57

Query: 71  FRSLIP------------SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIV 118
            RS                 I  + + + V D +      +     D    ER  +   +
Sbjct: 58  VRSETNDLVERLGIERTLQEIEKADIVLFVLDAS------SPLDEEDRKILERIKNKRYL 111

Query: 119 LVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI 166
           +V NK D+VEK      +        +   ++ SA  G  ++ L   I
Sbjct: 112 VVINKVDVVEKINEEEIK---NKLGTDRHMVKISALKGEGLEKLEESI 156

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]} 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: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

 Score = 38.5 bits (88), Expect = 2e-04
 Identities = 27/163 (16%), Positives = 47/163 (28%), Gaps = 7/163 (4%)

Query: 21  GKTSIITRFMY-------DKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS 73
           GKT++             DK   + +  I ID       LE+  + L             
Sbjct: 17  GKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAV 76

Query: 74  LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS 133
           +  + I D ++ VV      +         +D         +         ++     + 
Sbjct: 77  VSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSDNAGTEEIKRTEMIM 136

Query: 134 IEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETL 176
               ++     N   I  SAK GF +  L   I   L   E +
Sbjct: 137 KSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNNAEII 179

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.6 bits (89), Expect = 3e-04
 Identities = 21/161 (13%), Positives = 46/161 (28%), Gaps = 11/161 (6%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSK--TMYLEDRTVRLQLWDTAGQ 68
            +   G+   GK+S I        +    A  G+  ++     Y       +  WD  G 
Sbjct: 58  NVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGI 117

Query: 69  ERFRSLIPSYIR--DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDL 126
                   +Y+             +++ +   N       +      +   V    K D 
Sbjct: 118 GSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAIS-MMKKEFYFVR--TKVDS 174

Query: 127 V----EKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLF 163
                   +    + E   +++ +  + T  + G    P+F
Sbjct: 175 DITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIF 215

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} Length = 195

class: 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]

 Score = 37.0 bits (84), Expect = 6e-04
 Identities = 16/169 (9%), Positives = 48/169 (28%), Gaps = 9/169 (5%)

Query: 11  KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 70
           ++   G  +VGK+S I   +  K      +  G         + D    + +      + 
Sbjct: 25  EIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKV 84

Query: 71  FRSLIPSY------IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKT 124
            +S   ++         +   +             ++  +      +   + ++++  K 
Sbjct: 85  SKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKA 144

Query: 125 DLVEKRQVSIEEGEAKSR---ELNVMFIETSAKAGFNIKPLFRKIAAAL 170
           D + K +        +     +     I  S++        +  I   +
Sbjct: 145 DKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI 193

>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 = 35.3 bits (80), Expect = 0.002
 Identities = 29/184 (15%), Positives = 59/184 (32%), Gaps = 17/184 (9%)

Query: 14  FLGDQSVGKTSIITRFM-YDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-- 70
            +G  SVGK+++++           Y  T  +  L      + R+    + D  G     
Sbjct: 6   LVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSF--VMADLPGLIEGA 63

Query: 71  ----------FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLV 120
                      R +  + +    + +   +         T          R ++   ++V
Sbjct: 64  HQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIV 123

Query: 121 GNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAALPGMETLSSTK 180
            NK D+ E  +      E  + +  V  I  SA     ++ L  ++A  L          
Sbjct: 124 ANKMDMPEAAENLEAFKEKLTDDYPVFPI--SAVTREGLRELLFEVANQLENTPEFPLYD 181

Query: 181 QEEM 184
           +EE+
Sbjct: 182 EEEL 185

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	208
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.96
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.93
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.91
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.91
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.91
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.91
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.91
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.9
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.88
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.88
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.88
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.88
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.88
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.87
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.87
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.86
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.86
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.85
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.85
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.84
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.84
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.82
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.81
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.79
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.74
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.74
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.74
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.72
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.72
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.7
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.66
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.6
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.59
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.55
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.44
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.4
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.35
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.2
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.19
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.18
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.17
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.0
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.57
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.48
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.46
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.44
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.27
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.25
d1okkd2	207	GTPase domain of the signal recognition particle r	98.2
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.18
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.17
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.08
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.08
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.08
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.99
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.8
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.78
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.74
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.69
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.68
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.6
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.56
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.55
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.54
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.53
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.49
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.46
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.45
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.42
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.38
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.37
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.36
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.34
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.28
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.27
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.22
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.21
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.21
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.2
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.2
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.18
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.15
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.15
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.13
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.11
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.1
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.08
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.08
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.07
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.07
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.06
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.06
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.06
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.05
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.05
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.03
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.0
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.99
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.99
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.98
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.98
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.97
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.96
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.94
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.9
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.9
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.89
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.87
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.85
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.82
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.81
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.81
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.8
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.79
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.78
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.78
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.78
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.76
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.75
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.73
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.68
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.65
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.65
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.61
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.47
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.4
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.37
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.37
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.29
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.28
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.27
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.24
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.21
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.18
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.11
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.09
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.07
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.04
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.04
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.01
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.98
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.96
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.91
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.89
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.88
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.86
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.58
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.57
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.55
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.48
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.36
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.31
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.27
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.22
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.18
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.18
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	95.12
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.12
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.07
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.0
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.99
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.93
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.85
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.82
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.79
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.75
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.73
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.73
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.72
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.7
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.68
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.67
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.66
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.47
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.44
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.41
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.3
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.26
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.17
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.17
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.13
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	93.93
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.89
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.78
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.65
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.61
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.47
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.39
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.32
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.84
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.73
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.7
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.66
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.3
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.15
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.05
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	91.43
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	90.45
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	90.15
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	89.19
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.05
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.13
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	88.11
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.04
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	87.95
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	87.81
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	87.48
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	87.12
d5mdha1	154	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	86.69
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	86.52
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	86.49
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	85.69
d1mlda1	144	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	84.48
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	84.31
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	83.23
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	82.78
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	81.31
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	81.25
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	81.12
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	81.05
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	80.78
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	80.35
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	80.07

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.2e-37  Score=216.88  Aligned_cols=166  Identities=38%  Similarity=0.720  Sum_probs=158.0

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +|+++||+|+|.+|||||||+++|..+++...+.++.+..........++....+.+||++|++.+..+...+++.++++
T Consensus         1 ~~k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~   80 (167)
T d1z0ja1           1 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   80 (167)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccce
Confidence            47899999999999999999999999999999999999888888888999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |+|||+++++++..+..|+..+.....++.|+++|+||+|+.+.+.+...+++.++..++++++++||++|.||+++|..
T Consensus        81 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~  160 (167)
T d1z0ja1          81 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIE  160 (167)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHH
Confidence            99999999999999999999998888889999999999999888899999999999999999999999999999999999


Q ss_pred             HHHHcC
Q 028507          166 IAAALP  171 (208)
Q Consensus       166 l~~~~~  171 (208)
                      |++.++
T Consensus       161 l~~~i~  166 (167)
T d1z0ja1         161 ISRRIP  166 (167)
T ss_dssp             HHHHCC
T ss_pred             HHHhCC
Confidence            999885

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.6e-37  Score=214.37  Aligned_cols=164  Identities=84%  Similarity=1.277  Sum_probs=155.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      |||+|+|.+|||||||+++|.++++...+.++.+.+........++..+.+.+||++|++.+...+..++..+|++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            69999999999999999999999999999999988888888888888999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |++++.++..+..|+..+.....+++|+++|+||.|+.+.+....+++..++.+++++++++||++|.|++++|++|++.
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~  160 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA  160 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHh
Confidence            99999999999999999988887889999999999998888889999999999999999999999999999999999999


Q ss_pred             cCCC
Q 028507          170 LPGM  173 (208)
Q Consensus       170 ~~~~  173 (208)
                      ++++
T Consensus       161 l~g~  164 (164)
T d1yzqa1         161 LPGM  164 (164)
T ss_dssp             SCCC
T ss_pred             hCCC
Confidence            8753

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=9.8e-37  Score=215.37  Aligned_cols=165  Identities=36%  Similarity=0.677  Sum_probs=154.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      .-+||+|+|.+|+|||||+++|.++.+...+.++.+.+.....+......+.+.+||+||++++..++..+++++|++|+
T Consensus         4 ~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~il   83 (169)
T d3raba_           4 YMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFIL   83 (169)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            35899999999999999999999999999999999989989999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||+++++++..+..|+..+........|+++++||.|+.+.+.+..++++.++++++++++++||++|.|++++|++|+
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~  163 (169)
T d3raba_          84 MYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV  163 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHHH
Confidence            99999999999999999888877778899999999999988888899999999999999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       164 ~~i~e  168 (169)
T d3raba_         164 DVICE  168 (169)
T ss_dssp             HHHHT
T ss_pred             HHHhh
Confidence            88754

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=5.7e-37  Score=215.55  Aligned_cols=162  Identities=36%  Similarity=0.647  Sum_probs=152.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+++|.+|+|||||+++|..+.+...+.++.+.+.........+..+.+.+||++|+..+..+...+++.++++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            38999999999999999999999999999999999888888899999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||++++++++.+..|+..+.... +++|+++|+||+|+.+.+.+..++++.+++.++++++++||++|.|++++|++|++
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~  160 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAE  160 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHH
T ss_pred             EeccchhhhhhcccccccccccC-CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHH
Confidence            99999999999999999998765 46999999999999988899999999999999999999999999999999999988


Q ss_pred             HcC
Q 028507          169 ALP  171 (208)
Q Consensus       169 ~~~  171 (208)
                      .+.
T Consensus       161 ~~l  163 (164)
T d1z2aa1         161 KHL  163 (164)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            763

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.6e-37  Score=215.53  Aligned_cols=165  Identities=38%  Similarity=0.683  Sum_probs=148.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+|+|.+|||||||+++|..+++...+.++.+.+........++..+.+.+||++|...+..++..+++++|++|+
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            35899999999999999999999999999999999989999999999989999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++++|+.+..|+..+........|+++++||+|+...+.++.++++.++.+++++++++||++|.|++++|++|+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~  161 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLC  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHH
Confidence            99999999999999999988877777799999999999998889999999999999999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       162 ~~i~~  166 (167)
T d1z08a1         162 KRMIE  166 (167)
T ss_dssp             HHHHC
T ss_pred             HHHhh
Confidence            87643

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.2e-36  Score=213.06  Aligned_cols=163  Identities=41%  Similarity=0.697  Sum_probs=153.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+|+|.+|||||||+++|..+.+...+.++.+.+.....+.+++..+.+.+|||+|++.+..++..++++++++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~   83 (171)
T d2ew1a1           4 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALIL   83 (171)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEE
Confidence            35899999999999999999999999998889999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++.++..+..|+..+.......+|+++|+||+|+.+.+.+...+++.++..+++++++|||++|.||+++|..|+
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l~  163 (171)
T d2ew1a1          84 TYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLA  163 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             eeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHHH
Confidence            99999999999999999999887777899999999999988888889999999999999999999999999999999988


Q ss_pred             HHc
Q 028507          168 AAL  170 (208)
Q Consensus       168 ~~~  170 (208)
                      +.+
T Consensus       164 ~~l  166 (171)
T d2ew1a1         164 CRL  166 (171)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>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=100.00  E-value=1.9e-36  Score=214.65  Aligned_cols=167  Identities=32%  Similarity=0.485  Sum_probs=151.8

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+.+||+|+|.+|||||||+++|..+.+...+.++.. +.....+.+++..+.+.+||++|.+++...+..+++.+|++
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~   81 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGF   81 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEE
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhccceee
Confidence            35679999999999999999999999999888777754 55567788899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      |+|||++++.+++.+..|+..+.... ..++|+++|+||+|+.+.+.....+++.++..+++++++|||++|.|++++|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~  161 (173)
T d2fn4a1          82 LLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFE  161 (173)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHH
T ss_pred             eeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHHH
Confidence            99999999999999999999987654 46799999999999988888889999999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028507          165 KIAAALPGM  173 (208)
Q Consensus       165 ~l~~~~~~~  173 (208)
                      .|++.+.+.
T Consensus       162 ~l~~~i~k~  170 (173)
T d2fn4a1         162 QLVRAVRKY  170 (173)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988543

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.3e-36  Score=212.02  Aligned_cols=165  Identities=30%  Similarity=0.496  Sum_probs=150.2

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +++.+||+++|.+|+|||||++++.++.+...+.++.+.. ....+..++..+.+.+||++|.+.+..+...+++++|++
T Consensus         1 ~~pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~   79 (169)
T d1x1ra1           1 NLPTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGF   79 (169)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEE
T ss_pred             CCCcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeec-cccccccccccccccccccccccccccchhhhhhhccEE
Confidence            3578999999999999999999999999988888877644 456677889999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC-ChHHHH
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF-NIKPLF  163 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~  163 (208)
                      ++|||++++++|+.+..|+..+.+.. ..++|+++++||+|+.+.+.++.++++.++..++++++++||+++. ||+++|
T Consensus        80 llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F  159 (169)
T d1x1ra1          80 LIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTF  159 (169)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHH
T ss_pred             EEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHH
Confidence            99999999999999999999987765 3679999999999999888999999999999999999999999986 999999


Q ss_pred             HHHHHHcC
Q 028507          164 RKIAAALP  171 (208)
Q Consensus       164 ~~l~~~~~  171 (208)
                      +.|++.+.
T Consensus       160 ~~l~~~i~  167 (169)
T d1x1ra1         160 HDLVRVIR  167 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.6e-36  Score=212.73  Aligned_cols=163  Identities=34%  Similarity=0.473  Sum_probs=150.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|++|||||||+++|.++.+...+.++.+.++ ...+.+++..+.+.+||++|.+.+..+...++..+|++|
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   80 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhh
Confidence            4679999999999999999999999999888888887664 466788999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||+++++++..+..|+..+....+ .++|+++|+||+|+...+.++.++++.++.+++++|+++||++|.|++++|+.
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~  160 (167)
T d1xtqa1          81 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRR  160 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHH
T ss_pred             hhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHH
Confidence            99999999999999999999877654 67999999999999888889999999999999999999999999999999999


Q ss_pred             HHHHc
Q 028507          166 IAAAL  170 (208)
Q Consensus       166 l~~~~  170 (208)
                      |+..+
T Consensus       161 li~~~  165 (167)
T d1xtqa1         161 IILEA  165 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98765

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.2e-36  Score=213.29  Aligned_cols=161  Identities=30%  Similarity=0.418  Sum_probs=132.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      |||+|+|.+|||||||+++|.+..+... .++ ..+.....+.+++..+.+.+||++|++.+..++..+++.+|++|+||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~-~~~-~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~   79 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPE-AEA-AGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   79 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC-----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCc-CCe-eeeeecceeeccccccceeeeecccccccceecccchhhhhhhceec
Confidence            7999999999999999999998776433 233 33445567788999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      |++++++++.+..|+..+..... ..+|+++|+||+|+.+.++++..+++.++..++++++++||++|.|++++|+.|++
T Consensus        80 d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~  159 (168)
T d2gjsa1          80 SVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVR  159 (168)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHH
T ss_pred             cccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHH
Confidence            99999999999999999977654 66899999999999888889999999999999999999999999999999999998


Q ss_pred             HcCC
Q 028507          169 ALPG  172 (208)
Q Consensus       169 ~~~~  172 (208)
                      .+..
T Consensus       160 ~i~~  163 (168)
T d2gjsa1         160 QIRL  163 (168)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7643

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8.6e-36  Score=209.89  Aligned_cols=162  Identities=35%  Similarity=0.680  Sum_probs=153.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      -+||+|+|.+|||||||+++|.++.+...+.++.+.+........++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv   83 (166)
T d1z0fa1           4 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   83 (166)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEE
Confidence            48999999999999999999999999988888888888889999999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||+++++++..+..|+..+........|+++++||.|+........++++.++..++++++++||++|.||+++|+.|++
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i~~  163 (166)
T d1z0fa1          84 YDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAK  163 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             eccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999998888888999999999999888888899999999999999999999999999999999988


Q ss_pred             Hc
Q 028507          169 AL  170 (208)
Q Consensus       169 ~~  170 (208)
                      .+
T Consensus       164 ~i  165 (166)
T d1z0fa1         164 KI  165 (166)
T ss_dssp             HH
T ss_pred             Hh
Confidence            75

>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=100.00  E-value=5.2e-36  Score=211.40  Aligned_cols=164  Identities=32%  Similarity=0.579  Sum_probs=147.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ++-+||+|+|.+|||||||+++|..+++...+.+|.+.++ ...+.+++..+.+.+||++|.+++..+...+++++|++|
T Consensus         2 ~~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~i   80 (168)
T d1u8za_           2 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFL   80 (168)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEE
T ss_pred             CceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeE
Confidence            5678999999999999999999999999888888887654 456778899999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++++++.+..|+..+.... .+++|+++|+||+|+.+.+.++.++++.++..++++++++||++|.|++++|++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~  160 (168)
T d1u8za_          81 CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHH
Confidence            9999999999999999999987765 467999999999999888889999999999999999999999999999999999


Q ss_pred             HHHHcC
Q 028507          166 IAAALP  171 (208)
Q Consensus       166 l~~~~~  171 (208)
                      |++.+.
T Consensus       161 l~~~i~  166 (168)
T d1u8za_         161 LMREIR  166 (168)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998763

>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=100.00  E-value=1.2e-35  Score=209.91  Aligned_cols=165  Identities=41%  Similarity=0.794  Sum_probs=156.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..|||+|+|.+|||||||+++|..+++...+.++.+.+............+.+.+||++|++.+..++..++++++++|+
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   84 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIV   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEE
Confidence            46899999999999999999999999999999999988888888999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||.+++++++.+..|+..+.....+++|+++|+||+|+...+.++.++++.++..++++++++||++|.||+++|+.|+
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~  164 (170)
T d1r2qa_          85 VYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIA  164 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999999999888888899999999999988889999999999999999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       165 ~~i~~  169 (170)
T d1r2qa_         165 KKLPK  169 (170)
T ss_dssp             HTSCC
T ss_pred             HHHhh
Confidence            88754

>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=100.00  E-value=4.5e-36  Score=212.29  Aligned_cols=163  Identities=29%  Similarity=0.484  Sum_probs=147.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+|+|.+|||||||+++|+++.+...+.+|.+..+ ......++..+.+.+||++|.+.+......+++.+|++++|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   80 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   80 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEEE
Confidence            69999999999999999999999999888888887444 45567888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG--SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      ||+++++++..+..|+..+....+  .++|+++|+||+|+.+.+++..++++.++..++++++++||++|.|++++|+.|
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l  160 (171)
T d2erxa1          81 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL  160 (171)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHH
Confidence            999999999999999988876543  679999999999998888899999999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      ++.+.+
T Consensus       161 ~~~~~~  166 (171)
T d2erxa1         161 LNLEKR  166 (171)
T ss_dssp             HHTCCS
T ss_pred             HHHHHH
Confidence            987743

>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=100.00  E-value=3e-36  Score=212.46  Aligned_cols=163  Identities=34%  Similarity=0.563  Sum_probs=150.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |+++||+|+|.+|||||||+++|+++.+...+.++.+ +.......+++..+.+.+||++|.+.+......+++++|+++
T Consensus         1 mk~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~i   79 (167)
T d1kaoa_           1 MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFI   79 (167)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             CceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhccccee
Confidence            6899999999999999999999999999888888776 455667788899999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||+++++++..+..|+..+..... +++|+++|+||+|+.+.+.....+++.++..++++++++||++|.|++++|+.
T Consensus        80 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~  159 (167)
T d1kaoa_          80 LVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHH
T ss_pred             eeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHH
Confidence            99999999999999999999877553 67999999999999888889999999999999999999999999999999999


Q ss_pred             HHHHc
Q 028507          166 IAAAL  170 (208)
Q Consensus       166 l~~~~  170 (208)
                      |++.+
T Consensus       160 i~~~i  164 (167)
T d1kaoa_         160 IVRQM  164 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98765

>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=100.00  E-value=8.4e-36  Score=213.48  Aligned_cols=169  Identities=27%  Similarity=0.421  Sum_probs=148.9

Q ss_pred             CCCCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhcc
Q 028507            1 MAPVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR   80 (208)
Q Consensus         1 m~~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   80 (208)
                      |+..+...-+||+|+|.+|||||||+++|+.+.+...+.++.+ +.....+...+..+.+.+||++|++.+..++..+++
T Consensus         1 m~~~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~   79 (185)
T d2atxa1           1 MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYP   79 (185)
T ss_dssp             CSSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCT
T ss_pred             CCCCCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhccc
Confidence            7788777889999999999999999999999999888888876 445666777888899999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc------------ccCCCHHHHHHHHHhcC-Ce
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE------------KRQVSIEEGEAKSRELN-VM  147 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~  147 (208)
                      ++|++++|||++++++|+.+..|+....+...+++|+++|+||+|+.+            .+.++.+++..++..++ +.
T Consensus        80 ~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~  159 (185)
T d2atxa1          80 MTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACC  159 (185)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSC
T ss_pred             ccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCE
Confidence            999999999999999999876655555555567899999999999864            35678899999999988 59


Q ss_pred             EEEeecCCCCChHHHHHHHHHHc
Q 028507          148 FIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       148 ~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      |++|||++|.||+++|+.+++.+
T Consensus       160 ~~E~SAk~~~gv~e~F~~li~~i  182 (185)
T d2atxa1         160 YVECSALTQKGLKTVFDEAIIAI  182 (185)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEecCCCCcCHHHHHHHHHHHH
Confidence            99999999999999999998875

>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=100.00  E-value=1.4e-35  Score=208.99  Aligned_cols=164  Identities=29%  Similarity=0.543  Sum_probs=148.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |+++||+|+|.+|||||||+++|..+.+...+.++.+... ...+..++..+.+.+||++|++.+..++..+++++|++|
T Consensus         1 mr~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   79 (167)
T d1c1ya_           1 MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFA   79 (167)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeE
Confidence            6889999999999999999999999999888888877444 556677888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-CCeEEEeecCCCCChHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-NVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~  164 (208)
                      +|||++++++++.+..|+..+.... .+++|+++|+||+|+...+....+++..++.++ +++++++||++|.|++++|+
T Consensus        80 lv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~  159 (167)
T d1c1ya_          80 LVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFY  159 (167)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHH
T ss_pred             EeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHH
Confidence            9999999999999999999987754 467999999999999988888899989988874 68999999999999999999


Q ss_pred             HHHHHcC
Q 028507          165 KIAAALP  171 (208)
Q Consensus       165 ~l~~~~~  171 (208)
                      +|++.+.
T Consensus       160 ~l~~~i~  166 (167)
T d1c1ya_         160 DLVRQIN  166 (167)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9998764

>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=100.00  E-value=1.8e-35  Score=209.97  Aligned_cols=165  Identities=36%  Similarity=0.698  Sum_probs=151.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      .-+||+|+|.+|||||||+++|.++.+...+.++.+.+.....+..++..+.+.+||++|.+.+...+..+++.+|++|+
T Consensus         3 ~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~   82 (175)
T d2f9la1           3 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALL   82 (175)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEE
Confidence            45899999999999999999999999998888888888888899999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||.++++++..+..|+..+.....+++|+++|+||+|+.+.+.........+....+.+++++||++|.|++++|+++.
T Consensus        83 v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~  162 (175)
T d2f9la1          83 VYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNIL  162 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHHH
Confidence            99999999999999999999988888899999999999988887888888888899999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       163 ~~i~~  167 (175)
T d2f9la1         163 TEIYR  167 (175)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88743

>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=100.00  E-value=1.8e-35  Score=209.57  Aligned_cols=164  Identities=37%  Similarity=0.720  Sum_probs=149.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      -+||+|+|++|||||||++++.++++...+.++.+.+.........+..+.+.+||++|+..+..++..++..+|++|+|
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv   82 (173)
T d2a5ja1           3 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLV   82 (173)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEE
Confidence            48999999999999999999999999888888888888888888889899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||++++++++.+..|+..+......++|+++|+||+|+...+....+++..++..++++++++||++|.|++++|..|++
T Consensus        83 ~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~~  162 (173)
T d2a5ja1          83 YDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAK  162 (173)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHH
T ss_pred             EeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHH
Confidence            99999999999999999998887788999999999999888888999999999999999999999999999999999998


Q ss_pred             HcCC
Q 028507          169 ALPG  172 (208)
Q Consensus       169 ~~~~  172 (208)
                      .+.+
T Consensus       163 ~i~~  166 (173)
T d2a5ja1         163 EIYR  166 (173)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7753

>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=100.00  E-value=2.6e-35  Score=208.94  Aligned_cols=164  Identities=36%  Similarity=0.659  Sum_probs=154.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+|+|.+|||||||+++|..+++...+.++.+.+.....+..+.....+.+||++|++++..++..++..++++|+
T Consensus         4 ~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~   83 (174)
T d2bmea1           4 FLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALL   83 (174)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEE
Confidence            45899999999999999999999999999889998888888888889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||.++++++..+..|+..+......++|+++|+||+|+....+.....+..++..++++++++||++|.|++++|+++.
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l~  163 (174)
T d2bmea1          84 VYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCA  163 (174)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHH
Confidence            99999999999999999999888888899999999999988888889999999999999999999999999999999998


Q ss_pred             HHcC
Q 028507          168 AALP  171 (208)
Q Consensus       168 ~~~~  171 (208)
                      +.+.
T Consensus       164 ~~i~  167 (174)
T d2bmea1         164 RKIL  167 (174)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>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=100.00  E-value=2.1e-35  Score=208.85  Aligned_cols=164  Identities=34%  Similarity=0.591  Sum_probs=145.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      .++||+|+|.+|||||||+++|..+.+...+.++.+ +.....+.+++..+.+.+||++|.+.+......+++.+|++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLL   82 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEE
Confidence            469999999999999999999999999888888776 5556777889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      |||.+++++++.+..|+..+..... ...|+++|+||+|+.+.+.+..+++..++..++++|+++||++|.||+++|+.|
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l  162 (171)
T d2erya1          83 VFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHEL  162 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHH
Confidence            9999999999999999988766553 678999999999998888899999999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028507          167 AAALPG  172 (208)
Q Consensus       167 ~~~~~~  172 (208)
                      ++.+.+
T Consensus       163 ~~~i~k  168 (171)
T d2erya1         163 VRVIRK  168 (171)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998743

>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=100.00  E-value=3.8e-35  Score=211.57  Aligned_cols=165  Identities=39%  Similarity=0.665  Sum_probs=155.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      ..+||+|+|.+|||||||+++|.++.+...+.++.+.+.....+.+.+..+.+.+|||+|++.+..++..+++.+|++|+
T Consensus         5 ~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~   84 (194)
T d2bcgy1           5 YLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIII   84 (194)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            46999999999999999999999999999999999988888889999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||+++++++..+..|+..+.......+|+++|+||.|+.+......++...++...++.++++||++|.|++++|+.|+
T Consensus        85 v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~  164 (194)
T d2bcgy1          85 VYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMA  164 (194)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             EEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHHHHH
Confidence            99999999999999999999887778899999999999998888999999999999999999999999999999999999


Q ss_pred             HHcCC
Q 028507          168 AALPG  172 (208)
Q Consensus       168 ~~~~~  172 (208)
                      +.+.+
T Consensus       165 ~~i~~  169 (194)
T d2bcgy1         165 RQIKE  169 (194)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88754

>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=100.00  E-value=6.1e-36  Score=212.00  Aligned_cols=164  Identities=41%  Similarity=0.723  Sum_probs=125.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      .-+||+|+|.+|||||||+++|.++.+...+.++.+.+.....+..++..+.+.+||+||++.+..++..+++.+|++|+
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~   84 (173)
T d2fu5c1           5 YLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIML   84 (173)
T ss_dssp             EEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEE
Confidence            45899999999999999999999999988888999989999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIA  167 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  167 (208)
                      |||++++.+++.+..|+..+......+.|+++|+||.|+...+....+++..++...+++++++||++|.|++++|++|+
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l~  164 (173)
T d2fu5c1          85 VYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLA  164 (173)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHH
T ss_pred             EEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999999888888899999999999988888888889999999999999999999999999999999


Q ss_pred             HHcC
Q 028507          168 AALP  171 (208)
Q Consensus       168 ~~~~  171 (208)
                      +.+.
T Consensus       165 ~~i~  168 (173)
T d2fu5c1         165 RDIK  168 (173)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8774

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.6e-36  Score=211.61  Aligned_cols=161  Identities=30%  Similarity=0.582  Sum_probs=142.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +|||+++|++|+|||||+++|..+.+...+.+|.+.++....+..++..+.+.+||++|+..+..++..+++++|++++|
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIM   82 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhc
Confidence            58999999999999999999999999999999999898888888888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAA  168 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~  168 (208)
                      ||++++++++.+..|+..+.... +++|+++|+||+|+......  .+...++...+++++++||++|.|++++|++|++
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~  159 (170)
T d1i2ma_          83 FDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR  159 (170)
T ss_dssp             EETTSGGGGTTHHHHHHHHHHHH-CSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHH
T ss_pred             cccccccccchhHHHHHHHhhcc-CCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999987765 57999999999999765543  3456778888999999999999999999999999


Q ss_pred             HcCC
Q 028507          169 ALPG  172 (208)
Q Consensus       169 ~~~~  172 (208)
                      .+..
T Consensus       160 ~l~~  163 (170)
T d1i2ma_         160 KLIG  163 (170)
T ss_dssp             HHHT
T ss_pred             HHcc
Confidence            8854

>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=100.00  E-value=1.1e-34  Score=206.32  Aligned_cols=162  Identities=29%  Similarity=0.427  Sum_probs=144.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+|+|.+|+|||||+++|..+.+...+.++.+ +........++..+.+.+||++|++.+..++..+++++|++|+|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            47999999999999999999999999888888876 45556677888899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcCC-eEEEeecCC
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELNV-MFIETSAKA  155 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~  155 (208)
                      ||++++++|+.+..|+..+.....+++|+++|+||+|+.+.            +.+..++++.++.+++. +|++|||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt  160 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKT  160 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            99999999999887776666666678999999999998642            45788899999999985 899999999


Q ss_pred             CCChHHHHHHHHHHcC
Q 028507          156 GFNIKPLFRKIAAALP  171 (208)
Q Consensus       156 ~~~i~~~~~~l~~~~~  171 (208)
                      |.|++++|+.+.+.+.
T Consensus       161 ~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         161 KDGVREVFEMATRAAL  176 (177)
T ss_dssp             CTTHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHh
Confidence            9999999999988764

>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=100.00  E-value=8.3e-35  Score=204.82  Aligned_cols=163  Identities=28%  Similarity=0.526  Sum_probs=147.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |+++||+|+|++|||||||+++|+++.+...+.++.+..+. ......+..+.+.+||++|.+.+......++..+++++
T Consensus         1 m~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~i   79 (166)
T d1ctqa_           1 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   79 (166)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccchhhhhhcccccc
Confidence            57899999999999999999999999998888888876554 44667888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++.+++.+..|+..+..... +++|+++|+||+|+. .+....++++.++..++++++++||++|.|++++|.+
T Consensus        80 iv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~  158 (166)
T d1ctqa_          80 CVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYT  158 (166)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCS-CCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             eeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccc-cccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHH
Confidence            99999999999999999999887654 679999999999985 4566788999999999999999999999999999999


Q ss_pred             HHHHcC
Q 028507          166 IAAALP  171 (208)
Q Consensus       166 l~~~~~  171 (208)
                      |++.+.
T Consensus       159 i~~~i~  164 (166)
T d1ctqa_         159 LVREIR  164 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998774

>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=100.00  E-value=1.6e-34  Score=204.04  Aligned_cols=163  Identities=44%  Similarity=0.805  Sum_probs=152.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      .+||+|+|.+|+|||||+++|.++.+...+.++.+.++....+...+..+.+.+||++|++.+..++..++..+|++|+|
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVV   82 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEE
Confidence            58999999999999999999999999999999999888888899999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc---cCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK---RQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~---~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      ||.+++.+++.+..|+..+........|+++++||.|+.+.   +.+...+++.+++.++++|+++||++|.|++++|+.
T Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~  162 (170)
T d1ek0a_          83 YDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLG  162 (170)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHH
Confidence            99999999999999999888877788999999999998543   678889999999999999999999999999999999


Q ss_pred             HHHHcC
Q 028507          166 IAAALP  171 (208)
Q Consensus       166 l~~~~~  171 (208)
                      |++.++
T Consensus       163 i~~~i~  168 (170)
T d1ek0a_         163 IGEKIP  168 (170)
T ss_dssp             HHTTSC
T ss_pred             HHHHhc
Confidence            988764

>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=100.00  E-value=2e-34  Score=207.30  Aligned_cols=164  Identities=29%  Similarity=0.413  Sum_probs=144.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      |+.+||+++|++|||||||+++|..+.+...+.++.+ .........++..+.+.+||++|++++..++..+++.+|+++
T Consensus         1 m~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i   79 (191)
T d2ngra_           1 MQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFL   79 (191)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             CCceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eecceeEeeCCceeeeeccccccchhhhhhhhhcccccceee
Confidence            5679999999999999999999999999888888887 445566777888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcC-CeEEEeec
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELN-VMFIETSA  153 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa  153 (208)
                      +|||++++++|+.+..|+........++.|+++|+||+|+.+.            +.+..++++.++..++ .+++++||
T Consensus        80 lv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA  159 (191)
T d2ngra_          80 VCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSA  159 (191)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCT
T ss_pred             cccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeC
Confidence            9999999999999987666666666678999999999998642            4578899999999865 69999999


Q ss_pred             CCCCChHHHHHHHHHHcC
Q 028507          154 KAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~~~  171 (208)
                      ++|.|++++|+.++..+.
T Consensus       160 k~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         160 LTQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             TTCTTHHHHHHHHHHHHT
T ss_pred             CCCcCHHHHHHHHHHHHh
Confidence            999999999999988764

>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=100.00  E-value=2.1e-34  Score=203.12  Aligned_cols=161  Identities=33%  Similarity=0.486  Sum_probs=142.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      ++||+|+|++|||||||+++|..+.+...+.||.+.++. .....++..+.+.+||++|...+. ....++++++++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            689999999999999999999999999888998876654 445568888999999999988764 455678899999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCC-ChHHHHHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGF-NIKPLFRKI  166 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~~~l  166 (208)
                      ||+++++++..+..|+..+..... .+.|+++|+||+|+.+.+.++.++++.++.+++++|+++||++|. ||+++|..|
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l  159 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYEL  159 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHH
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHH
Confidence            999999999999998876655443 679999999999998888899999999999999999999999998 599999999


Q ss_pred             HHHcC
Q 028507          167 AAALP  171 (208)
Q Consensus       167 ~~~~~  171 (208)
                      ++.+.
T Consensus       160 ~~~i~  164 (168)
T d2atva1         160 CREVR  164 (168)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98764

>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=100.00  E-value=4.2e-34  Score=201.92  Aligned_cols=164  Identities=40%  Similarity=0.709  Sum_probs=142.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCC-CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNT-YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      ..+||+|+|++|||||||+++|+.+.+... ..++.+.+.....+..++..+.+.||||+|++.+..++..+++++|+++
T Consensus         5 ~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i   84 (170)
T d2g6ba1           5 VAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALL   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeE
Confidence            468999999999999999999999987544 4555677888888889999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKI  166 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  166 (208)
                      +|||.++++++..+..|+..+........|+++|+||.|......+..+++..++..++++++++||++|.|++++|++|
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~l  164 (170)
T d2g6ba1          85 LLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAI  164 (170)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHH
Confidence            99999999999999999998888887889999999999998888999999999999999999999999999999999999


Q ss_pred             HHHcC
Q 028507          167 AAALP  171 (208)
Q Consensus       167 ~~~~~  171 (208)
                      ++.+.
T Consensus       165 ~~~i~  169 (170)
T d2g6ba1         165 AKELK  169 (170)
T ss_dssp             HHHHH
T ss_pred             HHHcC
Confidence            98763

>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=100.00  E-value=1.9e-34  Score=206.53  Aligned_cols=164  Identities=37%  Similarity=0.633  Sum_probs=146.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECC----------EEEEEEEEEcCCchhhhhchhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLED----------RTVRLQLWDTAGQERFRSLIPS   77 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~i~D~~G~~~~~~~~~~   77 (208)
                      ..+||+|+|++|||||||+++|.++++...+.++.+.++....+..++          ..+.+.+||++|++++..++..
T Consensus         4 ~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~   83 (186)
T d2f7sa1           4 YLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTA   83 (186)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHH
T ss_pred             EEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHH
Confidence            468999999999999999999999999888888877776666554432          3468999999999999999999


Q ss_pred             hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCC
Q 028507           78 YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAG  156 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  156 (208)
                      +++++|++|+|||++++.+++.+..|+..+.... ....|+++|+||.|+.+.+++..+++..++..++++++++||++|
T Consensus        84 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~  163 (186)
T d2f7sa1          84 FFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATG  163 (186)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTT
T ss_pred             HHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCC
Confidence            9999999999999999999999999998876554 366889999999999988999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHcC
Q 028507          157 FNIKPLFRKIAAALP  171 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~  171 (208)
                      .|++++|++|.+.+.
T Consensus       164 ~~i~e~f~~l~~~i~  178 (186)
T d2f7sa1         164 QNVEKAVETLLDLIM  178 (186)
T ss_dssp             BTHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999999874

>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=100.00  E-value=1.2e-33  Score=198.58  Aligned_cols=160  Identities=35%  Similarity=0.626  Sum_probs=145.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-chhhhccCCcEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-LIPSYIRDSSVAV   86 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i   86 (208)
                      +-+||+|+|.+|||||||+++|..+++...+.++.+.........+......+.+||++|...+.. .+..++.++|++|
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            358999999999999999999999999999999988888888888999999999999999887654 4677889999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCC---CCChHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKA---GFNIKPL  162 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~~  162 (208)
                      +|||++++++++.+..|+..+..... +++|+++|+||.|+.+.+.++.++++.++..++++++++||++   ++||+++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~  160 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAI  160 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHH
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHH
Confidence            99999999999999999999877653 6799999999999988888999999999999999999999987   5699999


Q ss_pred             HHHHH
Q 028507          163 FRKIA  167 (208)
Q Consensus       163 ~~~l~  167 (208)
                      |++|+
T Consensus       161 F~~lA  165 (165)
T d1z06a1         161 FMTLA  165 (165)
T ss_dssp             HHHHC
T ss_pred             HHHhC
Confidence            99874

>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=100.00  E-value=2.2e-33  Score=199.47  Aligned_cols=168  Identities=39%  Similarity=0.687  Sum_probs=152.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+.+||+|+|.+|+|||||+++|.++++...+.++.+.......+.+++..+.+.+||++|++++..++..++..+|+++
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii   84 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVI   84 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEE
T ss_pred             cceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            45799999999999999999999999999998888888888888899999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      +|||++++.++..+..|+..+.... ....|+++++||.|. ..+.+...+++.++..++++++++||++|.|++++|++
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~-~~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~  163 (177)
T d1x3sa1          85 LVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK-ENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEE  163 (177)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTS-SSCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCccccccchhhhhhhcccccccceeeEEEeecccc-ccccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999987654 356889999999996 45677889999999999999999999999999999999


Q ss_pred             HHHHcCCCcc
Q 028507          166 IAAALPGMET  175 (208)
Q Consensus       166 l~~~~~~~~~  175 (208)
                      +++.+.+.+.
T Consensus       164 l~~~l~~~p~  173 (177)
T d1x3sa1         164 LVEKIIQTPG  173 (177)
T ss_dssp             HHHHHHTSGG
T ss_pred             HHHHHccCcc
Confidence            9998876553

>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=100.00  E-value=6.4e-34  Score=200.23  Aligned_cols=161  Identities=39%  Similarity=0.746  Sum_probs=143.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+++|.+|+|||||+++|+.+++...+.++.+.++....+.+++..+.+.+||+||++.+..++..++++++++|+||
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~   82 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVY   82 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEE
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHHHHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPLFRKIAAA  169 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  169 (208)
                      |.+++++++.+..|+..+........|++++++|.|+. .+....+++..++..++++++++||++|.|++++|++|++.
T Consensus        83 d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~~  161 (166)
T d1g16a_          83 DITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKL  161 (166)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             ECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhh-hhhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHHHH
Confidence            99999999999999999988888889999999999975 45566888999999999999999999999999999999987


Q ss_pred             cC
Q 028507          170 LP  171 (208)
Q Consensus       170 ~~  171 (208)
                      +.
T Consensus       162 i~  163 (166)
T d1g16a_         162 IQ  163 (166)
T ss_dssp             HH
T ss_pred             HH
Confidence            74

>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=100.00  E-value=1.6e-33  Score=201.18  Aligned_cols=165  Identities=28%  Similarity=0.446  Sum_probs=143.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +++.+||+|+|.+|||||||+++|+.+.+...+.++.+ +.....+..++..+.+.+||++|++.+..+...+++.+|++
T Consensus         2 ~p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   80 (183)
T d1mh1a_           2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVS   80 (183)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhhhccccccee
Confidence            35789999999999999999999999999888888876 44556677889999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc------------cCCCHHHHHHHHHhcC-CeEEEee
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK------------RQVSIEEGEAKSRELN-VMFIETS  152 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~s  152 (208)
                      ++|||++++++|+.+..|+.........++|+++|+||+|+.+.            ......+...+++.++ +.|++||
T Consensus        81 ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~S  160 (183)
T d1mh1a_          81 LICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  160 (183)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             eeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcC
Confidence            99999999999999877555554455567999999999998543            3456778888888887 6999999


Q ss_pred             cCCCCChHHHHHHHHHHcC
Q 028507          153 AKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~  171 (208)
                      |++|.||+++|+.|++.+.
T Consensus       161 Ak~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         161 ALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             TTTCTTHHHHHHHHHHHHS
T ss_pred             CCCCcCHHHHHHHHHHHHc
Confidence            9999999999999998774

>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=100.00  E-value=9.7e-34  Score=200.39  Aligned_cols=162  Identities=30%  Similarity=0.479  Sum_probs=139.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCC---chhhhhchhhhccCCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG---QERFRSLIPSYIRDSS   83 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G---~~~~~~~~~~~~~~~d   83 (208)
                      ..|||+++|.+|+|||||+++|.+..+. ....++++.+.....+.+++..+.+.+||+++   ++++  +...+++.+|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~   79 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGD   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCS
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccc
Confidence            4589999999999999999999987764 34455666777788888999999999999875   4444  4566789999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKPL  162 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  162 (208)
                      ++|+|||++++++++.+..|+..+..... +++|+++|+||+|+.+.++++.++++.++..++++++++||++|.|++++
T Consensus        80 ~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~  159 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKEL  159 (172)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             eeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHH
Confidence            99999999999999999999998876543 67999999999999888889999999999999999999999999999999


Q ss_pred             HHHHHHHcC
Q 028507          163 FRKIAAALP  171 (208)
Q Consensus       163 ~~~l~~~~~  171 (208)
                      |+.|++.+.
T Consensus       160 f~~l~~~i~  168 (172)
T d2g3ya1         160 FEGIVRQVR  168 (172)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998774

>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=100.00  E-value=1e-32  Score=195.44  Aligned_cols=162  Identities=39%  Similarity=0.649  Sum_probs=144.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +-|||+|+|.+|||||||+++|.++++...+.++.+..........++..+.+.+||++|...+...+..++..++++++
T Consensus         5 ~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   84 (174)
T d1wmsa_           5 SLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLL   84 (174)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEE
Confidence            46899999999999999999999999999999999888888888999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-CeEEEeecCCCCChHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAGFNIKPL  162 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~  162 (208)
                      +||.+++.+++.+..|+..+.....    +++|+++|+||.|+.+ +.+..++++.++++.+ ++++++||++|.||+++
T Consensus        85 ~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~  163 (174)
T d1wmsa_          85 TFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAA  163 (174)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHH
T ss_pred             EEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHH
Confidence            9999999999999999988876542    5689999999999854 6788899999998865 79999999999999999


Q ss_pred             HHHHHHHc
Q 028507          163 FRKIAAAL  170 (208)
Q Consensus       163 ~~~l~~~~  170 (208)
                      |++|++.+
T Consensus       164 f~~l~~~i  171 (174)
T d1wmsa_         164 FEEAVRRV  171 (174)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998876

>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=100.00  E-value=6.8e-33  Score=197.16  Aligned_cols=162  Identities=25%  Similarity=0.437  Sum_probs=141.7

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +.||+++|.+|||||||+++|..+.++..+.++.+ +........++..+.+.+||++|++.+......+++.+|++|+|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-ecccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            47999999999999999999999999888888775 44455667788899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc------------ccCCCHHHHHHHHHhcCC-eEEEeecCC
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE------------KRQVSIEEGEAKSRELNV-MFIETSAKA  155 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~  155 (208)
                      ||++++++|+.+..|+........+++|+++|+||+|+..            .+.++.++...++++++. .|++|||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~  160 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQ  160 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTT
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCC
Confidence            9999999999988776666555567899999999999864            355788999999998875 899999999


Q ss_pred             CCC-hHHHHHHHHHHcC
Q 028507          156 GFN-IKPLFRKIAAALP  171 (208)
Q Consensus       156 ~~~-i~~~~~~l~~~~~  171 (208)
                      |.+ ++++|+.++..+.
T Consensus       161 ~~n~i~~~F~~~~~~~l  177 (179)
T d1m7ba_         161 SENSVRDIFHVATLACV  177 (179)
T ss_dssp             BHHHHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHh
Confidence            984 9999999988764

>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=100.00  E-value=1.5e-32  Score=196.32  Aligned_cols=163  Identities=39%  Similarity=0.673  Sum_probs=144.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+|+|.+|||||||+++|+++++...+.++.+.+.........+..+.+.+||++|...+...+..++..+|+++++|
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   82 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF   82 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEee
Confidence            79999999999999999999999999999999999998999999988999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCcccCCCHHHHHHHHH-hcCCeEEEeecCCCCChHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEKRQVSIEEGEAKSR-ELNVMFIETSAKAGFNIKPLFR  164 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~  164 (208)
                      |.+++.++..+..|+..+.....    .++|+++|+||+|+.+. .....+...++. ..+++++++||++|.|++++|+
T Consensus        83 d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~  161 (184)
T d1vg8a_          83 DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR-QVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQ  161 (184)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC-CSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHH
T ss_pred             cccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccccc-chhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHH
Confidence            99999999999999998876542    46899999999998654 455666666654 5578999999999999999999


Q ss_pred             HHHHHcCCC
Q 028507          165 KIAAALPGM  173 (208)
Q Consensus       165 ~l~~~~~~~  173 (208)
                      +|++.+.+.
T Consensus       162 ~l~~~i~~~  170 (184)
T d1vg8a_         162 TIARNALKQ  170 (184)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            998877543

>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=100.00  E-value=5.2e-33  Score=197.10  Aligned_cols=163  Identities=39%  Similarity=0.653  Sum_probs=129.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEEC-CEEEEEEEEEcCCchhhhhchhhhccCCcEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   88 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   88 (208)
                      +||+|+|++|||||||+++|.++++...+.++.+........... .....+.+||++|++.+...+..+++.++++++|
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLV   82 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEEE
Confidence            799999999999999999999999988888877766655555443 3456799999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCccc-CCCHHHHHHHHHhcC-CeEEEeecCCCCChHHH
Q 028507           89 YDVASRQSFLNTSKWIDEVRTERG----SDVIIVLVGNKTDLVEKR-QVSIEEGEAKSRELN-VMFIETSAKAGFNIKPL  162 (208)
Q Consensus        89 ~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~nK~D~~~~~-~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~  162 (208)
                      ||++++.+++.+..|+..+.....    ..+|+++++||+|+.+.+ .+..++++.++..++ ++++++||++|.|++++
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~  162 (175)
T d1ky3a_          83 YDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTA  162 (175)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHH
T ss_pred             eecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHHH
Confidence            999999999999999999876543    578999999999997654 467888899998886 69999999999999999


Q ss_pred             HHHHHHHcCC
Q 028507          163 FRKIAAALPG  172 (208)
Q Consensus       163 ~~~l~~~~~~  172 (208)
                      |++|++.+.+
T Consensus       163 f~~l~~~~l~  172 (175)
T d1ky3a_         163 FEEIARSALQ  172 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999887643

>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=100.00  E-value=4.5e-31  Score=186.86  Aligned_cols=161  Identities=21%  Similarity=0.374  Sum_probs=134.1

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      +++.+||+++|.+|||||||++++.++.+... .++.+ +.....+.+++..+.+.|||++|+..+     .+++.+|++
T Consensus         2 ~~p~~ki~vlG~~~vGKTsLi~~~~~~~f~~~-~~t~~-~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~   74 (175)
T d2bmja1           2 SIPELRLGVLGDARSGKSSLIHRFLTGSYQVL-EKTES-EQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAV   74 (175)
T ss_dssp             CCCEEEEEEECCTTTTHHHHHHHHHHSCCCCC-CCSSC-EEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEE
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHhCCCCCc-CCccc-eeEEEEeecCceEEEEEEeeccccccc-----cccccccee
Confidence            46789999999999999999999999988543 34444 444667788999999999999997754     367889999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCc--ccCCCHHHHHHHHHh-cCCeEEEeecCCCCCh
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTER---GSDVIIVLVGNKTDLVE--KRQVSIEEGEAKSRE-LNVMFIETSAKAGFNI  159 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~piivv~nK~D~~~--~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i  159 (208)
                      |+|||++++++|+.+..|+..+....   ...+|+++|+||.|+..  .+.+...+++.++.. ++++|+++||++|.|+
T Consensus        75 ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v  154 (175)
T d2bmja1          75 IFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNV  154 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTH
T ss_pred             EEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCH
Confidence            99999999999999999999887653   36689999999888744  456778888888654 5679999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028507          160 KPLFRKIAAALPGM  173 (208)
Q Consensus       160 ~~~~~~l~~~~~~~  173 (208)
                      +++|..+++.+...
T Consensus       155 ~~~F~~l~~~i~~~  168 (175)
T d2bmja1         155 DRVFQEVAQKVVTL  168 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887543

>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=99.97  E-value=4.5e-31  Score=185.18  Aligned_cols=157  Identities=23%  Similarity=0.345  Sum_probs=129.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +++||+++|++|+|||||+++|..+.+...+.+|.+.+..  .+..++  +.+.+||+||++.+...+..++..++++++
T Consensus         1 ~e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~   76 (164)
T d1zd9a1           1 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVY   76 (164)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeeee--EEEEEeeccccccccccccccccccchhhc
Confidence            4799999999999999999999999998888888765543  344554  789999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHH-----HHhcCCeEEEeecCCCCChHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAK-----SRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      |||+++++++.....|+..+.... .+++|+++|+||.|+.+...  ..+....     +...++.++++||++|.|+++
T Consensus        77 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e  154 (164)
T d1zd9a1          77 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEKDNIDI  154 (164)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             ccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHH
Confidence            999999999999988888775543 36799999999999865432  2332222     223356899999999999999


Q ss_pred             HHHHHHHHc
Q 028507          162 LFRKIAAAL  170 (208)
Q Consensus       162 ~~~~l~~~~  170 (208)
                      +|++|++.+
T Consensus       155 ~~~~l~~~~  163 (164)
T d1zd9a1         155 TLQWLIQHS  163 (164)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHHcc
Confidence            999999865

>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=99.97  E-value=5.6e-30  Score=179.65  Aligned_cols=158  Identities=23%  Similarity=0.364  Sum_probs=123.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +++||+|+|++|+|||||+++|.+..+. ...++.+..  ...+...+  +.+.+||++|++.+...+..++..++++++
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   75 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFN--IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIW   75 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEE--EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeee--eeeccccc--cceeeeecCcchhhhhHHHhhhhhhhccee
Confidence            5799999999999999999999887663 445555433  33344555  789999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHHH--H---hcCCeEEEeecCCCCChHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKS--R---ELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~--~---~~~~~~~~~sa~~~~~i~~  161 (208)
                      |||+++..++.....++...... ...++|+++|+||.|+.+....  .+.....  .   ..++.++++||++|+|+.+
T Consensus        76 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e  153 (165)
T d1ksha_          76 VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC--NAIQEALELDSIRSHHWRIQGCSAVTGEDLLP  153 (165)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             eeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCH--HHHHHHHHhhhhhcCCCEEEEEECCCCCCHHH
Confidence            99999999998877776665443 3467999999999999654443  3322222  2   2245899999999999999


Q ss_pred             HHHHHHHHcCC
Q 028507          162 LFRKIAAALPG  172 (208)
Q Consensus       162 ~~~~l~~~~~~  172 (208)
                      +|++|.+.+.+
T Consensus       154 ~~~~l~~~i~~  164 (165)
T d1ksha_         154 GIDWLLDDISS  164 (165)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHc
Confidence            99999987743

>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=99.97  E-value=1.6e-30  Score=184.33  Aligned_cols=159  Identities=22%  Similarity=0.365  Sum_probs=125.4

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcE
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   84 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   84 (208)
                      +..+++||+++|++|||||||+++|.++.+... .++.+.+  ...+...+  +.+.+||++|++.+...+..++..+|+
T Consensus        12 ~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~-~~~~~~~--~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~~   86 (176)
T d1fzqa_          12 APDQEVRILLLGLDNAGKTTLLKQLASEDISHI-TPTQGFN--IKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDI   86 (176)
T ss_dssp             CCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEE-EEETTEE--EEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSE
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcc-eeeeeee--EEEeccCC--eeEeEeeccccccchhHHHHHhhccce
Confidence            346789999999999999999999998887432 2333332  33444454  789999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHHHHHH-----HHhcCCeEEEeecCCCCC
Q 028507           85 AVVVYDVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEEGEAK-----SRELNVMFIETSAKAGFN  158 (208)
Q Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~  158 (208)
                      +|+|||++++.++..+..++..+..... .++|+++++||+|+.++..  .......     +...++.++++||++|+|
T Consensus        87 ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~g  164 (176)
T d1fzqa_          87 LIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEG  164 (176)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTT
T ss_pred             eEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCCC
Confidence            9999999999999999888877755443 5799999999999976443  2222222     223356899999999999


Q ss_pred             hHHHHHHHHHHc
Q 028507          159 IKPLFRKIAAAL  170 (208)
Q Consensus       159 i~~~~~~l~~~~  170 (208)
                      ++++|+||.+.+
T Consensus       165 v~e~~~~l~~~i  176 (176)
T d1fzqa_         165 VQDGMNWVCKNV  176 (176)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHhcC
Confidence            999999998764

>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=99.96  E-value=1.6e-29  Score=178.63  Aligned_cols=158  Identities=22%  Similarity=0.360  Sum_probs=124.0

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+++||+++|++|||||||+++|..+.+.. ..++.+..  ........  +.+.+||+||...+...+..+++.++++
T Consensus         9 ~~k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~--~~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~i   83 (173)
T d1e0sa_           9 GNKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFN--VETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGL   83 (173)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEE--EEEEEETT--EEEEEEEESCCGGGHHHHGGGTTTCCEE
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeee--EEEeeccc--eeeEEecCCCcchhhhHHHhhhcccceE
Confidence            4578999999999999999999999877533 23344333  23333444  6899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCcccCCCHHHHHHH-----HHhcCCeEEEeecCCCCCh
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTE-RGSDVIIVLVGNKTDLVEKRQVSIEEGEAK-----SRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i  159 (208)
                      |+|||+++++++..+..|+..+... .....|+++++||+|+.+...  ..++...     +...++.++++||++|+|+
T Consensus        84 i~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv  161 (173)
T d1e0sa_          84 IFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMK--PHEIQEKLGLTRIRDRNWYVQPSCATSGDGL  161 (173)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECBTTTTBTH
T ss_pred             EEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccccc--HHHHHHHHHHHHHHhCCCEEEEeeCCCCcCH
Confidence            9999999999999988887776543 346799999999999865432  2222222     2233568999999999999


Q ss_pred             HHHHHHHHHHc
Q 028507          160 KPLFRKIAAAL  170 (208)
Q Consensus       160 ~~~~~~l~~~~  170 (208)
                      +++|++|.+.+
T Consensus       162 ~e~~~~l~~~~  172 (173)
T d1e0sa_         162 YEGLTWLTSNY  172 (173)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhc
Confidence            99999998875

>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=99.96  E-value=1.5e-30  Score=185.44  Aligned_cols=160  Identities=21%  Similarity=0.335  Sum_probs=121.7

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEE
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   85 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   85 (208)
                      ..+++||+++|.+|||||||+++|..+.+.. ..++.+..  .......+  +.+.+||++|++.+...+..++..++++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~--~~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~i   88 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFN--VETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAV   88 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCC--EEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceE--EEEEeeCC--EEEEEEecccccccchhHHhhhccceeE
Confidence            4578999999999999999999998777643 23444333  23334444  7799999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHH-----HHhcCCeEEEeecCCCCCh
Q 028507           86 VVVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAK-----SRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i  159 (208)
                      ++|||++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ...++...     +...++.+++|||++|+|+
T Consensus        89 i~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv  166 (182)
T d1moza_          89 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKGEGI  166 (182)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTH
T ss_pred             EEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc--CHHHHHHHHHHHHHhhCCCEEEEEECCCCCCH
Confidence            99999999999999888877654433 3679999999999985432  23333332     2334568999999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028507          160 KPLFRKIAAALPG  172 (208)
Q Consensus       160 ~~~~~~l~~~~~~  172 (208)
                      +++|++|.+.+.+
T Consensus       167 ~e~~~~l~~~i~~  179 (182)
T d1moza_         167 TEGLDWLIDVIKE  179 (182)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998754

>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=99.95  E-value=8.9e-28  Score=167.08  Aligned_cols=156  Identities=20%  Similarity=0.309  Sum_probs=121.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEE
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   89 (208)
                      +||+|+|++|||||||+++|.++++..........   ...  .+...+.+.+||++|...+......++..+++++++|
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~---~~~--~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN---VET--VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCC---EEE--EECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeE---EEE--EeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            69999999999999999999998875554333221   122  2234478999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCcccCCCHHH---HHHHHHhcCCeEEEeecCCCCChHHHHHH
Q 028507           90 DVASRQSFLNTSKWIDEVRTERG-SDVIIVLVGNKTDLVEKRQVSIEE---GEAKSRELNVMFIETSAKAGFNIKPLFRK  165 (208)
Q Consensus        90 d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~D~~~~~~~~~~~---~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  165 (208)
                      |++++.++..+..|+..+..... ..+|+++++||.|+..........   ...++...+++++++||++|+|++++|++
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~  155 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDW  155 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHH
Confidence            99999999998888887765443 668999999999986543321111   12233345678999999999999999999


Q ss_pred             HHHHc
Q 028507          166 IAAAL  170 (208)
Q Consensus       166 l~~~~  170 (208)
                      |.+.+
T Consensus       156 l~~~l  160 (160)
T d1r8sa_         156 LSNQL  160 (160)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            98864

>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=99.93  E-value=3.5e-25  Score=156.84  Aligned_cols=158  Identities=18%  Similarity=0.125  Sum_probs=112.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh--------hhchhhhcc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF--------RSLIPSYIR   80 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~   80 (208)
                      -.|+|+|.+|||||||+|+|++.+.. ....+.++...........+  ..+.+|||||....        .......+.
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~   83 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEALA   83 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhcccccccccc
Confidence            47999999999999999999987642 23344444455555555665  46999999996432        222334578


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC-CeEEEeecCCCCCh
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN-VMFIETSAKAGFNI  159 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i  159 (208)
                      .+|++|+|+|++++....  ..++..+.+....+.|+++|+||+|+.+..   ......+...++ ..++++||++|.|+
T Consensus        84 ~ad~il~v~D~~~~~~~~--~~~i~~~l~~~~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi  158 (178)
T d1wf3a1          84 DVNAVVWVVDLRHPPTPE--DELVARALKPLVGKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDERQV  158 (178)
T ss_dssp             SCSEEEEEEETTSCCCHH--HHHHHHHHGGGTTTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHHHH
T ss_pred             cccceeeeechhhhhccc--ccchhhheeccccchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCCCH
Confidence            999999999998754332  233333333444568999999999986532   233344444455 48899999999999


Q ss_pred             HHHHHHHHHHcCCCc
Q 028507          160 KPLFRKIAAALPGME  174 (208)
Q Consensus       160 ~~~~~~l~~~~~~~~  174 (208)
                      ++++++|.+.+++.+
T Consensus       159 ~~L~~~i~~~lpe~p  173 (178)
T d1wf3a1         159 AELKADLLALMPEGP  173 (178)
T ss_dssp             HHHHHHHHTTCCBCC
T ss_pred             HHHHHHHHHhCCCCC
Confidence            999999999887543

>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=99.93  E-value=1.2e-25  Score=158.89  Aligned_cols=157  Identities=21%  Similarity=0.298  Sum_probs=116.6

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .+++||+|+|.+|||||||+++|.++++.... ++.+  .........+  +.+.+||+++.+.....+..++..+++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~-~~~~--~~~~~~~~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~i   87 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIG--SNVEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   87 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEE-CCSC--SSCEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCccc-cccc--eeEEEEeecc--eEEEEeccccccccccchhhhhccceeee
Confidence            56799999999999999999999988774322 2222  1223333444  67999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHH-----HhcCCeEEEeecCCCCChH
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKS-----RELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  160 (208)
                      +++|.++..++.....++....... ....|+++|+||+|+.....  ..+.....     ...+++++++||++|+|++
T Consensus        88 ~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~  165 (177)
T d1zj6a1          88 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT--VAEISQFLKLTSIKDHQWHIQACCALTGEGLC  165 (177)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             eecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc--HHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHH
Confidence            9999999999888766655554333 36799999999999865443  23333222     2234689999999999999


Q ss_pred             HHHHHHHHHc
Q 028507          161 PLFRKIAAAL  170 (208)
Q Consensus       161 ~~~~~l~~~~  170 (208)
                      ++|++|.+++
T Consensus       166 e~~~~L~~~l  175 (177)
T d1zj6a1         166 QGLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999876

>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=99.93  E-value=8.8e-25  Score=152.89  Aligned_cols=160  Identities=22%  Similarity=0.337  Sum_probs=121.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +++||+++|.+|||||||+++|.++.+... .++.+  .........+  +.+.+||.++...+...........+++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   78 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccc--eeeeeeccCc--eEEEEeeccccccccccchhhhhhhhhhhh
Confidence            579999999999999999999999887543 23332  2233334444  679999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHH-HhcCCCCcEEEEEeCCCCCcccCCCH---HHHHHHHHhcCCeEEEeecCCCCChHHHH
Q 028507           88 VYDVASRQSFLNTSKWIDEVR-TERGSDVIIVLVGNKTDLVEKRQVSI---EEGEAKSRELNVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus        88 v~d~~~~~s~~~~~~~~~~i~-~~~~~~~piivv~nK~D~~~~~~~~~---~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  163 (208)
                      ++|+.+..++.....++.... .......|+++++||.|+........   .....++...+++++++||++|.|++++|
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~  158 (169)
T d1upta_          79 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAM  158 (169)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHH
T ss_pred             hhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHH
Confidence            999998888777766554443 33346789999999999976443211   11122334456799999999999999999


Q ss_pred             HHHHHHcCC
Q 028507          164 RKIAAALPG  172 (208)
Q Consensus       164 ~~l~~~~~~  172 (208)
                      ++|++.+.+
T Consensus       159 ~~l~~~l~~  167 (169)
T d1upta_         159 EWLVETLKS  167 (169)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999987743

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.91  E-value=2.5e-25  Score=160.02  Aligned_cols=159  Identities=17%  Similarity=0.152  Sum_probs=122.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +++||+++|..|||||||+++|..+.+  .+.||.+.+..  .+...  .+.+.+||++|++.+...+..++..++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~--~~~~~--~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   74 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEY--PFDLQ--SVIFRMVDVGGQRSERRKWIHCFENVTSIMF   74 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEE--EEECS--SCEEEEEECCCSTTGGGGGGGGCSSCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEE--EEecc--ceeeeeccccccccccccccccccccceeeE
Confidence            579999999999999999999998876  35677776543  33333  3779999999999999999999999999999


Q ss_pred             EEeCCChh-----------hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC----------------CCHHHHHHH
Q 028507           88 VYDVASRQ-----------SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ----------------VSIEEGEAK  140 (208)
Q Consensus        88 v~d~~~~~-----------s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~----------------~~~~~~~~~  140 (208)
                      ++|.++.+           .++....|...+......+.|+++++||.|+.+.+.                ........+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (200)
T d2bcjq2          75 LVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREF  154 (200)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHH
T ss_pred             eeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHH
Confidence            99998754           355577777777766667899999999999854321                112222222


Q ss_pred             HH----------hcCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          141 SR----------ELNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       141 ~~----------~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ..          ...+.++++||++|.|++++|+.|.+.+.+
T Consensus       155 i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~  196 (200)
T d2bcjq2         155 ILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQ  196 (200)
T ss_dssp             HHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHH
Confidence            11          113457899999999999999999887753

>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=99.91  E-value=3.1e-23  Score=144.22  Aligned_cols=151  Identities=22%  Similarity=0.262  Sum_probs=116.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEe
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   90 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   90 (208)
                      ||+++|++|||||||+++|.++++.. ..++.+...  ......+  ....+||++|...+......++..++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~-~~~t~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPTS--EELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-CCCCCSCEE--EEECCTT--CCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCe-eeceeeEeE--EEeccCC--eeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            89999999999999999999988753 344443322  2333333  568999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCcccCCCHHHHHHHHH------------hcCCeEEEeecCCCC
Q 028507           91 VASRQSFLNTSKWIDEVRTER-GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR------------ELNVMFIETSAKAGF  157 (208)
Q Consensus        91 ~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~------------~~~~~~~~~sa~~~~  157 (208)
                      .+++..+.....++....... ..+.|+++++||.|+....  ...+......            ..++.++++||++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  154 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV--SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRN  154 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC--CHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTB
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC--CHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCC
Confidence            999998888777777665544 3678999999999985432  3333332221            223479999999999


Q ss_pred             ChHHHHHHHHH
Q 028507          158 NIKPLFRKIAA  168 (208)
Q Consensus       158 ~i~~~~~~l~~  168 (208)
                      |++++|+||.+
T Consensus       155 Gv~e~~~~l~~  165 (166)
T d2qtvb1         155 GYLEAFQWLSQ  165 (166)
T ss_dssp             SHHHHHHHHTT
T ss_pred             CHHHHHHHHhC
Confidence            99999999975

>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=99.91  E-value=6.1e-24  Score=150.59  Aligned_cols=159  Identities=16%  Similarity=0.097  Sum_probs=105.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh-------hhchhhhccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF-------RSLIPSYIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~~d   83 (208)
                      +|+|+|.+|||||||+|+|++...........+.......... .....+.+|||||....       .......+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEV-SEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEEC-SSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeee-cCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            5999999999999999999976653333333332322222222 22346899999994321       112234467899


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507           84 VAVVVYDVASRQSFLNTSKWIDEVRTER--GSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      ++++++|.... .......+...+....  ..++|+++|+||+|+.+...  ..+........+.+++.+||++|.|+++
T Consensus        82 ~~~~~~d~~~~-~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~  158 (180)
T d1udxa2          82 VLLYVLDAADE-PLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLPA  158 (180)
T ss_dssp             EEEEEEETTSC-HHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhhhcccccc-cccchhhhhhhhhccccccchhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHH
Confidence            99999998753 2233333333332211  13489999999999976543  2344555566788999999999999999


Q ss_pred             HHHHHHHHcCCC
Q 028507          162 LFRKIAAALPGM  173 (208)
Q Consensus       162 ~~~~l~~~~~~~  173 (208)
                      +++.|.+.+...
T Consensus       159 L~~~i~~~l~~~  170 (180)
T d1udxa2         159 LKEALHALVRST  170 (180)
T ss_dssp             HHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhc
Confidence            999999888544

>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=99.91  E-value=5.5e-24  Score=152.35  Aligned_cols=155  Identities=19%  Similarity=0.242  Sum_probs=113.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +++||+++|..|||||||+++|....++...     .  ....+....  +.+.+||++|++.+...+..+++.++++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~~-----~--~~~~~~~~~--~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~   71 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGTG-----I--VETHFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIF   71 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCCS-----E--EEEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCcc-----E--EEEEEEeee--eeeeeeccccccccccchhhcccCCceeee
Confidence            5799999999999999999999987765432     1  223344444  779999999999999999999999999999


Q ss_pred             EEeCCChhhHH-----------HHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc---------------CCCHHHHHH--
Q 028507           88 VYDVASRQSFL-----------NTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR---------------QVSIEEGEA--  139 (208)
Q Consensus        88 v~d~~~~~s~~-----------~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~---------------~~~~~~~~~--  139 (208)
                      |+|+++.+++.           ....|...+........|+++++||.|+...+               .....+...  
T Consensus        72 v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (195)
T d1svsa1          72 CVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYI  151 (195)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHH
T ss_pred             EEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHH
Confidence            99999876552           23444444444455779999999999974321               111222211  


Q ss_pred             ---HHHh------cCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          140 ---KSRE------LNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       140 ---~~~~------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                         +...      ..+.+++|||+++.||+++|+.+.+.+.
T Consensus       152 ~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il  192 (195)
T d1svsa1         152 QCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII  192 (195)
T ss_dssp             HHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHH
Confidence               1111      1346789999999999999999988663

>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=99.91  E-value=2.4e-24  Score=149.95  Aligned_cols=151  Identities=19%  Similarity=0.227  Sum_probs=111.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh--------hchhhhcc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR--------SLIPSYIR   80 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~   80 (208)
                      +||+++|.+|||||||+|+|++.... ....+.+..+.....+...+  ..+.+||++|..+..        .....++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHH
Confidence            79999999999999999999977653 33445555555555666666  568999999954322        12334578


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      .+|++++++|..++.++.....|...+.. ...++|+++|+||+|+......       .....+.+++++||++|.|++
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~-~~~~~~iilv~NK~Dl~~~~~~-------~~~~~~~~~~~iSAk~~~gi~  151 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIAR-LPAKLPITVVRNKADITGETLG-------MSEVNGHALIRLSARTGEGVD  151 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHH-SCTTCCEEEEEECHHHHCCCCE-------EEEETTEEEEECCTTTCTTHH
T ss_pred             hccccceeeccccccchhhhhhhhhhhhh-cccccceeeccchhhhhhhHHH-------HHHhCCCcEEEEECCCCCCHH
Confidence            99999999999987776666665555543 3456999999999998654321       112235689999999999999


Q ss_pred             HHHHHHHHHc
Q 028507          161 PLFRKIAAAL  170 (208)
Q Consensus       161 ~~~~~l~~~~  170 (208)
                      +++++|.+.+
T Consensus       152 ~L~~~l~~~l  161 (161)
T d2gj8a1         152 VLRNHLKQSM  161 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhhC
Confidence            9999998764

>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=99.91  E-value=2.8e-24  Score=152.26  Aligned_cols=162  Identities=20%  Similarity=0.199  Sum_probs=108.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCC-------CCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhh
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTY-------QATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY   78 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   78 (208)
                      ++++++|+++|++|+|||||+|+|++.......       ....+.......+...+  ..+.++|++|+.++.......
T Consensus         2 ~~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~   79 (179)
T d1wb1a4           2 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSA   79 (179)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCC--ccccccccccccccccchhhh
Confidence            578999999999999999999999864321111       11111122222333444  569999999999998888888


Q ss_pred             ccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHHHHh----cCCeEEEee
Q 028507           79 IRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAKSRE----LNVMFIETS  152 (208)
Q Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~~~~----~~~~~~~~s  152 (208)
                      +..+|++++|+|+++...... ...+..+. .  .++|+++|+||+|+.+.....  ..........    .+.+++++|
T Consensus        80 l~~~d~~ilv~d~~~g~~~~~-~~~~~~~~-~--~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iS  155 (179)
T d1wb1a4          80 ADIIDLALIVVDAKEGPKTQT-GEHMLILD-H--FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPIS  155 (179)
T ss_dssp             TTSCCEEEEEEETTTCSCHHH-HHHHHHHH-H--TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECC
T ss_pred             hhhccccccccccccccchhh-hhhhhhhh-h--cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEE
Confidence            999999999999986432222 22222222 2  358999999999987643221  1111222221    235899999


Q ss_pred             cCCCCChHHHHHHHHHHcCCC
Q 028507          153 AKAGFNIKPLFRKIAAALPGM  173 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~~~  173 (208)
                      |++|+|++++++.|.+.+++.
T Consensus       156 A~~g~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         156 AKTGFGVDELKNLIITTLNNA  176 (179)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHS
T ss_pred             ccCCcCHHHHHHHHHhcCCcc
Confidence            999999999999999988653

>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=99.90  E-value=1.8e-22  Score=143.09  Aligned_cols=157  Identities=22%  Similarity=0.263  Sum_probs=113.1

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   86 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   86 (208)
                      .++.||+++|++|||||||+++|.++.+... .++.+.+.  ..+...+  ..+.+||+.+...+...+..+....++++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   85 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce--eEEEecc--cccccccccchhhhhhHHhhhhcccceee
Confidence            5679999999999999999999998887543 23333332  2344555  46889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh-----------------cCCeE
Q 028507           87 VVYDVASRQSFLNTSKWIDEVRT-ERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE-----------------LNVMF  148 (208)
Q Consensus        87 ~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~  148 (208)
                      +++|++++..+.....++..... ....++|+++++||.|+...  ....++......                 .++.+
T Consensus        86 ~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (186)
T d1f6ba_          86 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  163 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             eeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEE
Confidence            99999998888876655544433 33467999999999998543  334444433322                 13468


Q ss_pred             EEeecCCCCChHHHHHHHHHHc
Q 028507          149 IETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      +++||++|+|++++|+||.+.+
T Consensus       164 ~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         164 FMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             EECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEEeCCCCCCHHHHHHHHHHhh
Confidence            9999999999999999999865

>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=99.88  E-value=4.3e-22  Score=139.77  Aligned_cols=155  Identities=19%  Similarity=0.193  Sum_probs=99.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh---------hhhchhhhcc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER---------FRSLIPSYIR   80 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~   80 (208)
                      .|+|+|++|+|||||+++|++.... ....+..+.......+....  ..+.+||++|...         +.......+.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~   79 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIR   79 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccc--cccccccccceeeeeccccccccccccccccc
Confidence            5899999999999999999976643 22233333333344445555  5699999999432         2223344567


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChH
Q 028507           81 DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIK  160 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  160 (208)
                      .+|+++++.|.++..... ...++..+...   ++|+++|+||+|+.++..  .+....+.......++++||++|.|++
T Consensus        80 ~ad~i~~~~~~~~~~~~~-~~~~~~~l~~~---~~pviiv~NK~Dl~~~~~--~~~~~~~~~~~~~~~i~iSAk~g~gid  153 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKE-DESLADFLRKS---TVDTILVANKAENLREFE--REVKPELYSLGFGEPIPVSAEHNINLD  153 (171)
T ss_dssp             TCSEEEEEEETTTCCCHH-HHHHHHHHHHH---TCCEEEEEESCCSHHHHH--HHTHHHHGGGSSCSCEECBTTTTBSHH
T ss_pred             cCcEEEEeeccccccccc-ccccccccccc---cccccccchhhhhhhhhh--hHHHHHHHhcCCCCeEEEecCCCCCHH
Confidence            899999999988654332 23444444433   489999999999864322  122222222233477999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028507          161 PLFRKIAAALPGM  173 (208)
Q Consensus       161 ~~~~~l~~~~~~~  173 (208)
                      +++++|.+.+++.
T Consensus       154 ~L~~~i~~~l~e~  166 (171)
T d1mkya1         154 TMLETIIKKLEEK  166 (171)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCC
Confidence            9999999988543

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.88  E-value=1.1e-22  Score=146.08  Aligned_cols=157  Identities=19%  Similarity=0.232  Sum_probs=107.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.+||+++|.+|||||||+++|.   +...+.||.+...  ..+....  ..+.+||++|++.+...+..+++.++++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~--~~~~~~~--~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~   73 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHE--YDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILF   73 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEE--EEEEETT--EEEEEEEECC-------CTTSCTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEE--EEEeeee--eeeeeecccceeeecccccccccccceeEE
Confidence            46899999999999999999993   4456677777543  4455555  679999999999999999999999999999


Q ss_pred             EEeCCChhh----------HHHHHHHHHHHH-HhcCCCCcEEEEEeCCCCCccc----------------CCCHHHHHHH
Q 028507           88 VYDVASRQS----------FLNTSKWIDEVR-TERGSDVIIVLVGNKTDLVEKR----------------QVSIEEGEAK  140 (208)
Q Consensus        88 v~d~~~~~s----------~~~~~~~~~~i~-~~~~~~~piivv~nK~D~~~~~----------------~~~~~~~~~~  140 (208)
                      ++|.++...          ++....++..+. .....++|+++++||.|+.++.                .-..+.+..+
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (200)
T d1zcba2          74 LVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKF  153 (200)
T ss_dssp             EEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHH
T ss_pred             EEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHH
Confidence            999987432          334344444432 3334679999999999985421                1122233332


Q ss_pred             HHh-----------cCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          141 SRE-----------LNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       141 ~~~-----------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ...           ..+.++++||+++.+|+++|+.+.+.+.
T Consensus       154 ~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~  195 (200)
T d1zcba2         154 LVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTIL  195 (200)
T ss_dssp             HHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHH
Confidence            221           1245678999999999999999887653

>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=99.88  E-value=1.8e-22  Score=143.21  Aligned_cols=150  Identities=21%  Similarity=0.278  Sum_probs=98.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh---------------hhhch
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER---------------FRSLI   75 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------------~~~~~   75 (208)
                      .|+|+|.+|||||||+|+|++.+......++++.+.  ..+...+    +.+|||||...               +....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~--~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeecc--ccccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            589999999999999999998877555555444333  2333433    67899999421               12223


Q ss_pred             hhhccCCcEEEEEEeCCChhhHHHHH----------HHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhc-
Q 028507           76 PSYIRDSSVAVVVYDVASRQSFLNTS----------KWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSREL-  144 (208)
Q Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~----------~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-  144 (208)
                      ...++.+|++++|+|++.+.......          +.++.+.   ..++|+++|+||+|+.+..+.   ....+.... 
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~---~~~~p~iiv~NK~D~~~~~~~---~~~~~~~~~~  149 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLR---ELDIPTIVAVNKLDKIKNVQE---VINFLAEKFE  149 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHH---HTTCCEEEEEECGGGCSCHHH---HHHHHHHHHT
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHH---HcCCCEEEEEeeeehhhhHHH---HHHHHHHHhc
Confidence            34467899999999997543221111          1122222   235999999999998654321   111112221 


Q ss_pred             ------CCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          145 ------NVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       145 ------~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                            ...++++||++|.|+++++++|.+.+++
T Consensus       150 ~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         150 VPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             CCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence                  1258899999999999999999988764

>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=99.88  E-value=2.2e-22  Score=139.66  Aligned_cols=149  Identities=21%  Similarity=0.271  Sum_probs=104.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh---------hchhhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR---------SLIPSYI   79 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~   79 (208)
                      +||+++|.+|+|||||+|+|++.+.. ....+..+...........+  ..+.+||+||.....         ......+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            69999999999999999999976642 34444554455555666666  568999999943211         1122246


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCCh
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNI  159 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  159 (208)
                      ..+|++++|+|++++........+ ..+     ...++++++||.|+.+...  .++.... ...+.+++++||++|.|+
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~-~~~-----~~~~~i~~~~k~d~~~~~~--~~~~~~~-~~~~~~~~~vSA~~g~gi  149 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKIL-ERI-----KNKRYLVVINKVDVVEKIN--EEEIKNK-LGTDRHMVKISALKGEGL  149 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHH-HHH-----TTSSEEEEEEECSSCCCCC--HHHHHHH-HTCSTTEEEEEGGGTCCH
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhh-hhc-----ccccceeeeeeccccchhh--hHHHHHH-hCCCCcEEEEECCCCCCH
Confidence            789999999999987654433221 111     3478899999999876433  3333222 233568999999999999


Q ss_pred             HHHHHHHHHH
Q 028507          160 KPLFRKIAAA  169 (208)
Q Consensus       160 ~~~~~~l~~~  169 (208)
                      ++++++|.+.
T Consensus       150 ~~L~~~I~ke  159 (160)
T d1xzpa2         150 EKLEESIYRE  159 (160)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999998763

>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=99.88  E-value=4.2e-22  Score=141.62  Aligned_cols=160  Identities=22%  Similarity=0.261  Sum_probs=104.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh------------h
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR------------S   73 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------------~   73 (208)
                      ...+||+|+|.+|+|||||+|+|++.... ....+.++.......+.+++  ..+.++|+||.....            .
T Consensus         6 ~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~   83 (186)
T d1mkya2           6 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKYSNY   83 (186)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT--EEEEESSCSCC-----------CCSCCH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC--ceeeeeccCCccccccccccccccchhH
Confidence            34699999999999999999999976542 22223333334444556666  458899999964322            1


Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh----c-CCeE
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE----L-NVMF  148 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~----~-~~~~  148 (208)
                      .....+..+|++++|+|++.+.. .....+...+..   .+.|+++|+||+|+.........+......+    . ..++
T Consensus        84 ~~~~~~~~~dvii~v~d~~~~~~-~~~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i  159 (186)
T d1mkya2          84 RVVDSIEKADVVVIVLDATQGIT-RQDQRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPL  159 (186)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCE
T ss_pred             HHHHHHhcCCEEEEeecccccch-hhHHHHHHHHHH---cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeE
Confidence            23334678999999999985432 222333333333   3489999999999876554444443333222    2 3489


Q ss_pred             EEeecCCCCChHHHHHHHHHHcCC
Q 028507          149 IETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +++||++|.|+++++++|.+.+..
T Consensus       160 ~~vSa~~g~gv~~L~~~i~~~~~~  183 (186)
T d1mkya2         160 IFTSADKGWNIDRMIDAMNLAYAS  183 (186)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999887654

>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=99.87  E-value=1.6e-22  Score=143.81  Aligned_cols=159  Identities=19%  Similarity=0.119  Sum_probs=100.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh----c---hhhhccCCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS----L---IPSYIRDSS   83 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~---~~~~~~~~d   83 (208)
                      +|+|+|++|||||||+|+|++.+......+..+.........+.+. ..+.+|||||..+...    +   ....+..++
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~-~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR   81 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCC-cEEEEecCCCcccCchHHHHHHHHHHHHHHHhh
Confidence            6899999999999999999977653333333333333333333222 3588999999643211    1   122346788


Q ss_pred             EEEEEEeCCChhhHHHHH--HHHHHHHHh---cCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHh--cCCeEEEeecCCC
Q 028507           84 VAVVVYDVASRQSFLNTS--KWIDEVRTE---RGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRE--LNVMFIETSAKAG  156 (208)
Q Consensus        84 ~~i~v~d~~~~~s~~~~~--~~~~~i~~~---~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~sa~~~  156 (208)
                      .++++++....+......  .+.......   ...++|+++|+||+|+.+..    ...+.+...  .+.+++.+||++|
T Consensus        82 ~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~~g  157 (185)
T d1lnza2          82 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTR  157 (185)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCS
T ss_pred             hhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECCCC
Confidence            888888766433222111  111111111   12468999999999986543    222333333  3578999999999


Q ss_pred             CChHHHHHHHHHHcCCCc
Q 028507          157 FNIKPLFRKIAAALPGME  174 (208)
Q Consensus       157 ~~i~~~~~~l~~~~~~~~  174 (208)
                      .|++++++.|.+.+.+.+
T Consensus       158 ~Gi~~L~~~i~~~L~~~p  175 (185)
T d1lnza2         158 EGLRELLFEVANQLENTP  175 (185)
T ss_dssp             STTHHHHHHHHHHHTSCC
T ss_pred             CCHHHHHHHHHHhhhhCC
Confidence            999999999999986544

>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=99.87  E-value=2.2e-22  Score=147.48  Aligned_cols=161  Identities=18%  Similarity=0.154  Sum_probs=101.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEE----------------EECCEEEEEEEEEcCCchhhhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTM----------------YLEDRTVRLQLWDTAGQERFRS   73 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~i~D~~G~~~~~~   73 (208)
                      ..|+|+|++++|||||+++|++...........+........                .+......+.++|||||..|..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~   85 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT   85 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccc
Confidence            349999999999999999998653321111111111001111                1122234689999999999988


Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH-------------------
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI-------------------  134 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~-------------------  134 (208)
                      .....+..+|++|+|+|+.+.-.... ...+..+..   .++|+++++||+|+........                   
T Consensus        86 ~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~  161 (227)
T d1g7sa4          86 LRKRGGALADLAILIVDINEGFKPQT-QEALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKL  161 (227)
T ss_dssp             SBCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHH
T ss_pred             cchhcccccceEEEEEecccCcccch-hHHHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHH
Confidence            88888999999999999985322121 222222322   3589999999999875432110                   


Q ss_pred             -HHHHHH---HHhc---------------CCeEEEeecCCCCChHHHHHHHHHHcCCCc
Q 028507          135 -EEGEAK---SREL---------------NVMFIETSAKAGFNIKPLFRKIAAALPGME  174 (208)
Q Consensus       135 -~~~~~~---~~~~---------------~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  174 (208)
                       ......   ..+.               ..+++++||.+|.|++++++.|.....+..
T Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~  220 (227)
T d1g7sa4         162 DTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYL  220 (227)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHH
Confidence             000000   0010               137899999999999999999988765443

>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=99.86  E-value=4.2e-21  Score=137.47  Aligned_cols=163  Identities=19%  Similarity=0.193  Sum_probs=107.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCCC---CCCcccee--eEEEEEE-------------------ECCEEEEEEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDNT---YQATIGID--FLSKTMY-------------------LEDRTVRLQL   62 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~~---~~~~~~~~--~~~~~~~-------------------~~~~~~~~~i   62 (208)
                      -+.++|+++|+.++|||||+++|++......   .....+..  +......                   .......+++
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   82 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEee
Confidence            3578999999999999999999986433211   11111111  1111111                   1112456999


Q ss_pred             EEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC--CHHHHHHH
Q 028507           63 WDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV--SIEEGEAK  140 (208)
Q Consensus        63 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~--~~~~~~~~  140 (208)
                      +|+||+..|.......+..+|++++|+|+.+........+.+..+....  ..+++++.||+|+.+....  .......+
T Consensus        83 iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~~~~~~~~~  160 (195)
T d1kk1a3          83 IDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIKEF  160 (195)
T ss_dssp             EECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHH
T ss_pred             eccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHHHHHHHHHH
Confidence            9999999999988888899999999999986422222333333333322  1457888999998764321  12333444


Q ss_pred             HHhcC---CeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          141 SRELN---VMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       141 ~~~~~---~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ....+   ++++++||++|+|++++++.|.+.++
T Consensus       161 ~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~iP  194 (195)
T d1kk1a3         161 IEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  194 (195)
T ss_dssp             HTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             hccccCCCCeEEEEECCCCCCHHHHHHHHHHHCc
Confidence            44332   58999999999999999999988774

>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=99.86  E-value=2.1e-21  Score=138.57  Aligned_cols=159  Identities=15%  Similarity=0.105  Sum_probs=108.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC----------------cCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD----------------KFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      ++++|+++|+.++|||||+++|++.                ....+.....+++.....+...+  ..+.++|+||+..|
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~--~~~~~iDtPGh~~f   79 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA--RHYAHTDCPGHADY   79 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSS--CEEEEEECSSHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEece--eeEEeecCcchHHH
Confidence            4689999999999999999999741                11222333344444444444444  57999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCC---CHHHHHHHHHhcC---
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQV---SIEEGEAKSRELN---  145 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~---~~~~~~~~~~~~~---  145 (208)
                      .......+..+|++|+|+|+++.-. .+..+.+..+.. .+ ..|+|+++||+|+.+..+.   -..++..+....+   
T Consensus        80 ~~~~~~~~~~aD~allVVda~~G~~-~QT~~~~~~a~~-~~-~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~  156 (196)
T d1d2ea3          80 VKNMITGTAPLDGCILVVAANDGPM-PQTREHLLLARQ-IG-VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKG  156 (196)
T ss_dssp             HHHHHHTSSCCSEEEEEEETTTCSC-HHHHHHHHHHHH-TT-CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHHHhhcCeEEEEEEcCCCCc-hhHHHHHHHHHH-hc-CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCc
Confidence            9988888999999999999985322 122222222222 22 2578889999998754321   1123344444443   


Q ss_pred             --CeEEEeecCCC----------CChHHHHHHHHHHcC
Q 028507          146 --VMFIETSAKAG----------FNIKPLFRKIAAALP  171 (208)
Q Consensus       146 --~~~~~~sa~~~----------~~i~~~~~~l~~~~~  171 (208)
                        ++++++|+++|          .++.++++.|.+.++
T Consensus       157 ~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~iP  194 (196)
T d1d2ea3         157 EETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (196)
T ss_dssp             TTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             ccCEEEEEEccccccccCcccccCCHHHHHHHHHhhCC
Confidence              57999999988          488888988887765

>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=99.85  E-value=2.1e-20  Score=134.73  Aligned_cols=164  Identities=18%  Similarity=0.149  Sum_probs=104.5

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCC---CCCCccceeeEE--EEEEE------------------------CCEE
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDN---TYQATIGIDFLS--KTMYL------------------------EDRT   57 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~---~~~~~~~~~~~~--~~~~~------------------------~~~~   57 (208)
                      -++++|+++|+.++|||||+++|++.....   ........+...  .....                        ....
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFL   85 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEE
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccce
Confidence            456999999999999999999998632210   000000000000  00000                        1123


Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IE  135 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~  135 (208)
                      ..+.++|+|||.+|.......+..+|++|+|+|+.+.-......+.+..+. ..+ ..|++|+.||+|+.+.....  ..
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~-~~~-i~~iIV~vNK~Dl~~~~~~~~~~~  163 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALG-IIG-VKNLIIVQNKVDVVSKEEALSQYR  163 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHH-HTT-CCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHH-HcC-CceeeeccccCCCccchHHHHHHH
Confidence            469999999999998888888899999999999986411112222222222 222 24788889999997644321  12


Q ss_pred             HHHHHHHhc---CCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          136 EGEAKSREL---NVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       136 ~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      +...+....   +++++++||++|.|++++++.|.+.++.
T Consensus       164 ~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip~  203 (205)
T d2qn6a3         164 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKT  203 (205)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhCCC
Confidence            223333322   3589999999999999999999998764

>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=99.85  E-value=2.5e-20  Score=134.56  Aligned_cols=118  Identities=22%  Similarity=0.334  Sum_probs=86.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh-hchhhhccCCcEEEEEE
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR-SLIPSYIRDSSVAVVVY   89 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~   89 (208)
                      +|+|+|++|+|||||+++|+++.+... .++.+.+.....+ .+...+.+.+||++|++.+. ..+..++..++++++|+
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIYKV-NNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEEEC-SSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEEEE-eeeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            699999999999999999999887654 3444444333322 23345789999999998875 46677889999999999


Q ss_pred             eCCChhh-HHHHHHHHHHHHH---hcCCCCcEEEEEeCCCCCccc
Q 028507           90 DVASRQS-FLNTSKWIDEVRT---ERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        90 d~~~~~s-~~~~~~~~~~i~~---~~~~~~piivv~nK~D~~~~~  130 (208)
                      |+++..+ +.....++..+..   .....+|++|++||+|+..+.
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             EcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            9998765 3444444444322   223568999999999997543

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.84  E-value=6.5e-21  Score=139.03  Aligned_cols=156  Identities=19%  Similarity=0.215  Sum_probs=110.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVV   87 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   87 (208)
                      +.+||+++|..|||||||+++|..+.+    .||.|+.  ...+.+++  +.+.+||++|+..++..+..++.+++++++
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~--~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~   76 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIF--ETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIF   76 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCE--EEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeE--EEEEEECc--EEEEEEecCccceeccchhhhcccccceEE
Confidence            468999999999999999999986654    3555543  34455665  779999999999999999999999999999


Q ss_pred             EEeCCChh----------hHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC----CC-------------------
Q 028507           88 VYDVASRQ----------SFLN-TSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ----VS-------------------  133 (208)
Q Consensus        88 v~d~~~~~----------s~~~-~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~----~~-------------------  133 (208)
                      ++|.++.+          ...+ ...|...+......++|++|++||+|+.+++.    ..                   
T Consensus        77 v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~  156 (221)
T d1azta2          77 VVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATP  156 (221)
T ss_dssp             EEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCC
T ss_pred             EEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccc
Confidence            99998532          2222 23333333333336799999999999854311    00                   


Q ss_pred             -------HHHHHHHH-----Hh--------cCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          134 -------IEEGEAKS-----RE--------LNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       134 -------~~~~~~~~-----~~--------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                             ..++..+.     ..        ..+..+++||.++.+++.+|+.+.+.+.
T Consensus       157 ~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~  214 (221)
T d1azta2         157 EPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQ  214 (221)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHH
T ss_pred             cCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHH
Confidence                   12222221     11        1234678999999999999988776654

>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=99.84  E-value=3.5e-20  Score=132.59  Aligned_cols=154  Identities=14%  Similarity=0.162  Sum_probs=92.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh----------h---hhchh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER----------F---RSLIP   76 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~---~~~~~   76 (208)
                      .+|+|+|.+|||||||+|+|++.+.........+.+..........   .+.+.|+++...          .   .....
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~  100 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYI  100 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhHHhhhh
Confidence            4899999999999999999997654222222222222222222222   355677766221          1   11222


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH----hcCCeEEEee
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR----ELNVMFIETS  152 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~----~~~~~~~~~s  152 (208)
                      .....++++++|+|++.+... ....+++.+..   .++|+++|+||+|+.++.... ........    ..+.+++.+|
T Consensus       101 ~~~~~~~~vi~viD~~~~~~~-~~~~~~~~l~~---~~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~S  175 (195)
T d1svia_         101 TTREELKAVVQIVDLRHAPSN-DDVQMYEFLKY---YGIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDPEDELILFS  175 (195)
T ss_dssp             HHCTTEEEEEEEEETTSCCCH-HHHHHHHHHHH---TTCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCTTSEEEECC
T ss_pred             ccccchhhhhhhhhccccccc-ccccccccccc---ccCcceechhhccccCHHHHH-HHHHHHHHHhcccCCCCEEEEe
Confidence            335678999999999854321 22334444443   348999999999986554322 11222222    2345899999


Q ss_pred             cCCCCChHHHHHHHHHHcC
Q 028507          153 AKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       153 a~~~~~i~~~~~~l~~~~~  171 (208)
                      |++|.|+++++++|.+.+.
T Consensus       176 A~~~~gi~el~~~i~~~l~  194 (195)
T d1svia_         176 SETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             TTTCTTHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHhC
Confidence            9999999999999988763

>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=99.82  E-value=1.5e-19  Score=127.44  Aligned_cols=159  Identities=16%  Similarity=0.219  Sum_probs=105.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCC-CCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh---------hhchhhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF---------RSLIPSYI   79 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~   79 (208)
                      -.|+|+|.+|||||||+|+|++.+.. ....+++...........+.  ..+..+|++|....         ........
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAASSSI   83 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTTSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccccch
Confidence            35899999999999999999987653 22233333333334444444  34677888874321         12223334


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCC-eEEEeecCCCCC
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNV-MFIETSAKAGFN  158 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~  158 (208)
                      ..+++++++.|..+..  .....+...+..   ...|+++++||.|............+.....++. +++++||++|.|
T Consensus        84 ~~~~~~l~~~d~~~~~--~~~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~g  158 (179)
T d1egaa1          84 GDVELVIFVVEGTRWT--PDDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLN  158 (179)
T ss_dssp             CCEEEEEEEEETTCCC--HHHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTT
T ss_pred             hhcceeEEEEecCccc--hhHHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCC
Confidence            5778888888887532  222233333332   3478899999999876654444555555666664 899999999999


Q ss_pred             hHHHHHHHHHHcCCCcc
Q 028507          159 IKPLFRKIAAALPGMET  175 (208)
Q Consensus       159 i~~~~~~l~~~~~~~~~  175 (208)
                      +++++++|.+.+++.+.
T Consensus       159 i~~L~~~i~~~lpe~~~  175 (179)
T d1egaa1         159 VDTIAAIVRKHLPEATH  175 (179)
T ss_dssp             HHHHHHHHHTTCCBCCC
T ss_pred             HHHHHHHHHHhCCCCCC
Confidence            99999999999876543

>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=99.81  E-value=4.3e-20  Score=132.79  Aligned_cols=141  Identities=18%  Similarity=0.135  Sum_probs=93.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC--cC---------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD--KF---------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~--~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      ++++|+++|+.++|||||+++|+..  ..               +.+..+..+++.....+.+++  .+++|+|||||.+
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~--~~i~iiDtPGh~d   79 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGHAD   79 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCSGG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC--eEEEEEeCCCchh
Confidence            4689999999999999999999732  00               111112344555566666666  5699999999999


Q ss_pred             hhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcccCC---CHHHHHHHHHhcC-
Q 028507           71 FRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLVEKRQV---SIEEGEAKSRELN-  145 (208)
Q Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~~~~---~~~~~~~~~~~~~-  145 (208)
                      |.......+..+|++|+|+|+++.-.... .+.+..+. .  .++| +++++||+|+.+..+.   ...++..+...++ 
T Consensus        80 f~~~~~~~~~~aD~avlVvda~~Gv~~qt-~~~~~~~~-~--~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~  155 (204)
T d2c78a3          80 YIKNMITGAAQMDGAILVVSAADGPMPQT-REHILLAR-Q--VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEF  155 (204)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCHHH-HHHHHHHH-H--TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCCcHHH-HHHHHHHH-H--cCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCC
Confidence            99988888999999999999985433222 22222222 2  2465 6777899998653221   1123333333333 


Q ss_pred             ----CeEEEeecC
Q 028507          146 ----VMFIETSAK  154 (208)
Q Consensus       146 ----~~~~~~sa~  154 (208)
                          ++++..|+.
T Consensus       156 ~~~~i~~i~~sa~  168 (204)
T d2c78a3         156 PGDEVPVIRGSAL  168 (204)
T ss_dssp             CTTTSCEEECCHH
T ss_pred             Ccccceeeeeech
Confidence                467888865

>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=99.79  E-value=8.8e-19  Score=127.14  Aligned_cols=153  Identities=17%  Similarity=0.206  Sum_probs=101.0

Q ss_pred             CCCCCCCceeEEEEcCCCCCHHHHHHHhhcC--cCC-------------------------------CCCCCccceeeEE
Q 028507            2 APVSALAKYKLVFLGDQSVGKTSIITRFMYD--KFD-------------------------------NTYQATIGIDFLS   48 (208)
Q Consensus         2 ~~~~~~~~~~i~vvG~~~~GKstli~~l~~~--~~~-------------------------------~~~~~~~~~~~~~   48 (208)
                      +.++....+||+++|+.++|||||+.+|+..  ...                               .......+++...
T Consensus         2 ~~~~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~   81 (222)
T d1zunb3           2 GQHERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAY   81 (222)
T ss_dssp             CSTTSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEE
T ss_pred             cccccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeE
Confidence            3566677899999999999999999999732  110                               0111122233333


Q ss_pred             EEEEECCEEEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCC
Q 028507           49 KTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVI-IVLVGNKTDLV  127 (208)
Q Consensus        49 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D~~  127 (208)
                      ......+  ..+.|+|+|||..|.......+..+|++|+|+|+.+.  +.........+....  +++ ++++.||+|+.
T Consensus        82 ~~~~~~~--~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G--~~~Qt~e~~~~~~~~--gv~~iiv~vNK~D~~  155 (222)
T d1zunb3          82 RYFSTAK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYG--VQTQTRRHSYIASLL--GIKHIVVAINKMDLN  155 (222)
T ss_dssp             EEEECSS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTC--SCHHHHHHHHHHHHT--TCCEEEEEEECTTTT
T ss_pred             EEEeccc--eEEEEEeccchhhhhhhhccccccCceEEEEeccccC--cccchHHHHHHHHHc--CCCEEEEEEEccccc
Confidence            3344444  5799999999999999888889999999999999853  233223233333333  355 78888999997


Q ss_pred             cccCCCH----HHHHHHHHhcCC-----eEEEeecCCCCChH
Q 028507          128 EKRQVSI----EEGEAKSRELNV-----MFIETSAKAGFNIK  160 (208)
Q Consensus       128 ~~~~~~~----~~~~~~~~~~~~-----~~~~~sa~~~~~i~  160 (208)
                      +..+...    .+...++...++     +++++||.+|+|+.
T Consensus       156 ~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         156 GFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             TSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             cccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence            6433222    223344444443     67999999999983

>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=99.74  E-value=4.9e-17  Score=120.86  Aligned_cols=115  Identities=20%  Similarity=0.317  Sum_probs=83.2

Q ss_pred             Cce-eEEEEcCCCCCHHHHHHHhhc--CcC----------------CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCc
Q 028507            8 AKY-KLVFLGDQSVGKTSIITRFMY--DKF----------------DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   68 (208)
Q Consensus         8 ~~~-~i~vvG~~~~GKstli~~l~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   68 (208)
                      .++ +|+++|+.|+|||||+.+|+.  +..                +.+.....++......+.+++  .+++|+||||+
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~   81 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGH   81 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSS
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCch
Confidence            344 699999999999999999873  111                112223445556667777777  56999999999


Q ss_pred             hhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           69 ERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      .+|.......+..+|+.|+|+|+.+.=......-| ....   ..++|.++++||+|...
T Consensus        82 ~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~---~~~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          82 VDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAE---KYKVPRIAFANKMDKTG  137 (276)
T ss_dssp             SSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHH---TTTCCEEEEEECTTSTT
T ss_pred             hhhHHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHH---HcCCCEEEEEecccccc
Confidence            99999999999999999999999854222222222 2222   34699999999999853

>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=99.74  E-value=3e-18  Score=123.46  Aligned_cols=117  Identities=18%  Similarity=0.244  Sum_probs=81.6

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhhchhhh----ccCCc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY----IRDSS   83 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~d   83 (208)
                      .+.+|+|+|++|+|||||+|+|+++++..    +++.+.....+..+  ...+.+||+||+..+...+..+    ...++
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~----~tt~~~~~~~~~~~--~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~   75 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAADYD--GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVK   75 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCC----BCCCSSCEEETTGG--GSSCEEEECCCCGGGTHHHHHHHHHHGGGEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC----eEEecceEEEEEeC--CeEEEEEecccccchhhHHHHHHHHHhhhcc
Confidence            45789999999999999999999887642    33333333333333  3568999999998765544433    45668


Q ss_pred             EEEEEEeCCC-hhhHHHHHHHHH----HHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           84 VAVVVYDVAS-RQSFLNTSKWID----EVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        84 ~~i~v~d~~~-~~s~~~~~~~~~----~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      .+++++|+.+ ..++..+..|+.    .+......++|+++++||+|+....
T Consensus        76 ~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          76 GLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             EEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             ccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccC
Confidence            8999998764 445555555543    3344455789999999999986543

>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=99.74  E-value=2.2e-18  Score=126.39  Aligned_cols=149  Identities=16%  Similarity=0.215  Sum_probs=101.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC--cC-----------------------------CCCCCCccceeeEEEEEEECCE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD--KF-----------------------------DNTYQATIGIDFLSKTMYLEDR   56 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   56 (208)
                      .+++|+++|+.++|||||+.+|+..  ..                             ..+.....+++.....+.+++ 
T Consensus         5 ~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~-   83 (239)
T d1f60a3           5 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK-   83 (239)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS-
T ss_pred             CccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC-
Confidence            4689999999999999999998631  11                             112223455555566666666 


Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHH------HHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcc
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFL------NTSKWIDEVRTERGSDVI-IVLVGNKTDLVEK  129 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~  129 (208)
                       ++++|+|+|||.+|...+...+..+|++|+|+|+++.. ++      ........+....  ++| +++++||+|+.+.
T Consensus        84 -~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~-~e~g~~~~~QT~eh~~~~~~~--gv~~iiv~iNKmD~~~~  159 (239)
T d1f60a3          84 -YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGE-FEAGISKDGQTREHALLAFTL--GVRQLIVAVNKMDSVKW  159 (239)
T ss_dssp             -EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHH-HHHHTCTTSHHHHHHHHHHHT--TCCEEEEEEECGGGGTT
T ss_pred             -EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCc-cccccCchHhHHHHHHHHHHc--CCCeEEEEEECCCCCCC
Confidence             67999999999999999889999999999999998421 11      1122222222232  365 7888999998764


Q ss_pred             cCCCH----HHHHHHHHhcC-----CeEEEeecCCCCChHH
Q 028507          130 RQVSI----EEGEAKSRELN-----VMFIETSAKAGFNIKP  161 (208)
Q Consensus       130 ~~~~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  161 (208)
                      .....    .+...++...+     ++++.+|+..|.|+-+
T Consensus       160 d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         160 DESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            33222    23333444443     4689999999988644

>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=99.72  E-value=2.8e-16  Score=116.44  Aligned_cols=112  Identities=15%  Similarity=0.209  Sum_probs=81.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC--cCCC----------------CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD--KFDN----------------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF   71 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~--~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   71 (208)
                      -+|+|+|+.++|||||+.+|+..  ....                +.....++......+.+++  .+++++||||+.+|
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~--~~~n~iDtPGh~dF   80 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGYGDF   80 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCSGGG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc--cceeEEccCchhhh
Confidence            37999999999999999999632  1100                0112345556666777777  56999999999999


Q ss_pred             hhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           72 RSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      .......+..+|++|+|+|+.+.-.......| .....   .++|.++++||+|..
T Consensus        81 ~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~-~~~~~---~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          81 VGEIRGALEAADAALVAVSAEAGVQVGTERAW-TVAER---LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCEEEEEECGGGC
T ss_pred             hhhhhhhhcccCceEEEeeccCCccchhHHHH-Hhhhh---ccccccccccccccc
Confidence            99999999999999999999854333332222 22332   349999999999974

>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=99.72  E-value=2e-17  Score=116.86  Aligned_cols=164  Identities=15%  Similarity=0.107  Sum_probs=85.0

Q ss_pred             CCCCCCceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchh-------hhhc-
Q 028507            3 PVSALAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-------FRSL-   74 (208)
Q Consensus         3 ~~~~~~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~-   74 (208)
                      ..+....++|+|+|.+|+|||||+|+|++.+.........+................+..++.++...       .... 
T Consensus        10 ~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (188)
T d1puia_          10 HLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRAL   89 (188)
T ss_dssp             GSSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHH
T ss_pred             HCCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhh
Confidence            34456789999999999999999999998765333222221111122222222222222222222111       1111 


Q ss_pred             --hhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHHHHHHHhc--CCeE
Q 028507           75 --IPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEGEAKSREL--NVMF  148 (208)
Q Consensus        75 --~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~~~~~~~~--~~~~  148 (208)
                        ........+.++.+.+........ ...++..+..   ...++++++||+|+.......  ...........  ..++
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~---~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (188)
T d1puia_          90 GEYLEKRQSLQGLVVLMDIRHPLKDL-DQQMIEWAVD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQV  165 (188)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHHH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEE
T ss_pred             hhhhhhhhheeEEEEeecccccchhH-HHHHHHHhhh---ccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcE
Confidence              111223445566666665432222 2233333332   347889999999986643221  12222222222  2488


Q ss_pred             EEeecCCCCChHHHHHHHHHHc
Q 028507          149 IETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       149 ~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      +.+||++|.|++++++.|.+.+
T Consensus       166 i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         166 ETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHHh
Confidence            9999999999999999987754

>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=99.70  E-value=4e-17  Score=118.83  Aligned_cols=149  Identities=18%  Similarity=0.253  Sum_probs=92.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCc--C-----------------------------CCCCCCccceeeEEEEEEECCE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDK--F-----------------------------DNTYQATIGIDFLSKTMYLEDR   56 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   56 (208)
                      ++++|+++|+.++|||||+.+|+...  .                             ..+.....+++.....+..++ 
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~-   80 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK-   80 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS-
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCC-
Confidence            46899999999999999999986311  0                             111222233333334444444 


Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhH-----H-HHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSF-----L-NTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~-----~-~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                       +.++|+|||||.+|.......+..+|++|+|+|+.+.-..     . +..+.+ .+....+ ..++++++||+|+....
T Consensus        81 -~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l-~~~~~~~-~~~iIv~iNK~D~~~~~  157 (224)
T d1jnya3          81 -YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHI-ILAKTMG-LDQLIVAVNKMDLTEPP  157 (224)
T ss_dssp             -CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHH-HHHHHTT-CTTCEEEEECGGGSSST
T ss_pred             -ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHH-HHHHHhC-CCceEEEEEcccCCCcc
Confidence             6799999999999999999999999999999999863111     1 111112 2222222 24578889999986432


Q ss_pred             CC--CH----HHHHHHHHhcC-----CeEEEeecCCCCChH
Q 028507          131 QV--SI----EEGEAKSRELN-----VMFIETSAKAGFNIK  160 (208)
Q Consensus       131 ~~--~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~  160 (208)
                      ..  ..    .+...+...++     ++++++||..|.|+.
T Consensus       158 ~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         158 YDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             ccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence            11  11    22233333333     478999999999875

>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=99.66  E-value=2.6e-16  Score=115.69  Aligned_cols=151  Identities=17%  Similarity=0.233  Sum_probs=81.7

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC--cC-----------------------------CCCCCCccceeeEEEEEEECCE
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD--KF-----------------------------DNTYQATIGIDFLSKTMYLEDR   56 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   56 (208)
                      +.++|+++|+.++|||||+.+|+..  ..                             ........+++.....+.+++ 
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~-  101 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH-  101 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS-
T ss_pred             CceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccccc-
Confidence            4678999999999999999999521  11                             011111222222223333444 


Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhh---HH---HHHHHHHHHHHhcCCCCc-EEEEEeCCCCCcc
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQS---FL---NTSKWIDEVRTERGSDVI-IVLVGNKTDLVEK  129 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~p-iivv~nK~D~~~~  129 (208)
                       ..+.++|+|||..|..........+|++++|+|+.+...   +.   +..+.+ .+....  +++ +++++||+|+...
T Consensus       102 -~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l-~l~~~~--~i~~iiv~iNKmD~~~~  177 (245)
T d1r5ba3         102 -RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHA-VLARTQ--GINHLVVVINKMDEPSV  177 (245)
T ss_dssp             -EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHH-HHHHHT--TCSSEEEEEECTTSTTC
T ss_pred             -ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHH-HHHHHc--CCCeEEEEEEcCCCCcc
Confidence             569999999999999988888999999999999985311   00   122222 222222  354 7888899998643


Q ss_pred             cC--CCHH----HHHHHHHhc-------CCeEEEeecCCCCChHHHH
Q 028507          130 RQ--VSIE----EGEAKSREL-------NVMFIETSAKAGFNIKPLF  163 (208)
Q Consensus       130 ~~--~~~~----~~~~~~~~~-------~~~~~~~sa~~~~~i~~~~  163 (208)
                      ..  ....    +...+....       .++++++||++|+|+.+++
T Consensus       178 ~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         178 QWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  224 (245)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccch
Confidence            21  1111    122222222       2479999999999996654

>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=99.60  E-value=1.7e-14  Score=106.87  Aligned_cols=126  Identities=11%  Similarity=0.083  Sum_probs=80.3

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcCCC-CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhhh-------chh--
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKFDN-TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS-------LIP--   76 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~--   76 (208)
                      ...++|+|+|.+|+|||||+|+|++..... ...+..+.+........++  ..+.++||||..+...       ...  
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHH
Confidence            457999999999999999999999876533 2233333344455556666  5699999999543211       111  


Q ss_pred             hhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCC--CcEEEEEeCCCCCcccCCCH
Q 028507           77 SYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSD--VIIVLVGNKTDLVEKRQVSI  134 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piivv~nK~D~~~~~~~~~  134 (208)
                      ......|++++|++++...--......+..+...++.+  .++++|+||.|...+.....
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~~  167 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPY  167 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCcH
Confidence            11346788999988864311112233344444444432  46899999999987655544

>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=99.59  E-value=4.3e-15  Score=116.60  Aligned_cols=161  Identities=14%  Similarity=0.130  Sum_probs=94.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccc---eeeEEEEEEECCEEEEEEEEEcCCchhhhhc-----hhhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIG---IDFLSKTMYLEDRTVRLQLWDTAGQERFRSL-----IPSYI   79 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----~~~~~   79 (208)
                      ..++|+|+|.+|+|||||+|+|++..........++   .+.........+ .-.+.+|||||.......     ....+
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~-~~~~~l~DtPG~~~~~~~~~~~~~~~~~  133 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKF  133 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccC-CCeEEEEeCCCcccccccHHHHHHHhhh
Confidence            358999999999999999999998654322211111   111111222221 124889999996543221     22235


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcc-------cCCCHHHH--------HHHHHhc
Q 028507           80 RDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEK-------RQVSIEEG--------EAKSREL  144 (208)
Q Consensus        80 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~-------~~~~~~~~--------~~~~~~~  144 (208)
                      ..+|.++++.|..-.+  . -..+...+..   .++|+++|.||+|....       .....++.        .......
T Consensus       134 ~~~d~~l~~~~~~~~~--~-d~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~  207 (400)
T d1tq4a_         134 YEYDFFIIISATRFKK--N-DIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFREN  207 (400)
T ss_dssp             GGCSEEEEEESSCCCH--H-HHHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHT
T ss_pred             hcceEEEEecCCCCCH--H-HHHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHc
Confidence            6788888887754211  1 1233333433   35999999999996421       11112111        1122222


Q ss_pred             CC---eEEEeecCCC--CChHHHHHHHHHHcCCCcc
Q 028507          145 NV---MFIETSAKAG--FNIKPLFRKIAAALPGMET  175 (208)
Q Consensus       145 ~~---~~~~~sa~~~--~~i~~~~~~l~~~~~~~~~  175 (208)
                      +.   +++.+|..+.  .++.++.+.+.+.+++..+
T Consensus       208 ~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~~~  243 (400)
T d1tq4a_         208 GIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKR  243 (400)
T ss_dssp             TCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGH
T ss_pred             CCCCCCEEEecCCcccccCHHHHHHHHHHHhHHHHH
Confidence            33   6788887653  4889999999998876543

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.55  E-value=8e-15  Score=112.03  Aligned_cols=116  Identities=18%  Similarity=0.269  Sum_probs=79.0

Q ss_pred             Cce-eEEEEcCCCCCHHHHHHHhhc--CcC--------------CCCCCCccceeeEEEEEEE--------------CCE
Q 028507            8 AKY-KLVFLGDQSVGKTSIITRFMY--DKF--------------DNTYQATIGIDFLSKTMYL--------------EDR   56 (208)
Q Consensus         8 ~~~-~i~vvG~~~~GKstli~~l~~--~~~--------------~~~~~~~~~~~~~~~~~~~--------------~~~   56 (208)
                      .++ +|+|+|+.++|||||+.+|+.  +..              ..+..+..++......+.+              +++
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~   94 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   94 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhcccccc
Confidence            345 599999999999999999972  111              1112222333333333322              335


Q ss_pred             EEEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 028507           57 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLV  127 (208)
Q Consensus        57 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~  127 (208)
                      .+.++++|||||.+|.......++.+|++|+|+|+.+.-......-|....    ..++|+++++||+|..
T Consensus        95 ~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~----~~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          95 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL----GERIKPVVVINKVDRA  161 (341)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH----HTTCEEEEEEECHHHH
T ss_pred             ceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHH----HcCCCeEEEEECcccc
Confidence            678999999999999999999999999999999998543333323322222    2359999999999974

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.44  E-value=7e-14  Score=102.38  Aligned_cols=110  Identities=15%  Similarity=-0.004  Sum_probs=66.7

Q ss_pred             EEEEEEcCCchhhhhchhhh-----ccCCcEEEEEEeCC---ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           59 RLQLWDTAGQERFRSLIPSY-----IRDSSVAVVVYDVA---SRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        59 ~~~i~D~~G~~~~~~~~~~~-----~~~~d~~i~v~d~~---~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      .+.++|+||+..+.......     ....+.+++++|+.   ++..+...........  .....|.++++||+|+....
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~--~~~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLID--LRLGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHH--HHHTSCEEEEECCGGGCCHH
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHH--HHhCCCceeeeeccccccHH
Confidence            48999999988754432221     22456888999875   3433332221111111  12348899999999987642


Q ss_pred             CCCHHH--------------------------HHHHHHh--cCCeEEEeecCCCCChHHHHHHHHHHc
Q 028507          131 QVSIEE--------------------------GEAKSRE--LNVMFIETSAKAGFNIKPLFRKIAAAL  170 (208)
Q Consensus       131 ~~~~~~--------------------------~~~~~~~--~~~~~~~~sa~~~~~i~~~~~~l~~~~  170 (208)
                      ......                          ......+  ..++++++||++|+|+++++..|.+++
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         174 EKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            211000                          0000111  245899999999999999999998764

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.40  E-value=2.2e-12  Score=96.38  Aligned_cols=84  Identities=15%  Similarity=0.184  Sum_probs=57.4

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCE------------E---EEEEEEEcCCchh---
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDR------------T---VRLQLWDTAGQER---   70 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~---~~~~i~D~~G~~~---   70 (208)
                      .+||.+||.|+||||||++++++.+......|+++++.....+.+.+.            .   ..+.++|.||.-.   
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~   81 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcc
Confidence            389999999999999999999988776555566665544444444321            1   2488999999532   


Q ss_pred             ----hhhchhhhccCCcEEEEEEeCC
Q 028507           71 ----FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        71 ----~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                          ........++++|++|+|+|+.
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCccHHHHHHHHhccceEEEeecc
Confidence                2334455689999999999874

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.35  E-value=8.9e-12  Score=93.82  Aligned_cols=86  Identities=17%  Similarity=0.194  Sum_probs=62.5

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCE---------------EEEEEEEEcCCchh-
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDR---------------TVRLQLWDTAGQER-   70 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-   70 (208)
                      ..++|.+||.|+||||||+++++.... .....|+++++.....+.+.+.               ...+.++|.||... 
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            358999999999999999999997654 3455666666655555555431               23689999998443 


Q ss_pred             ------hhhchhhhccCCcEEEEEEeCCC
Q 028507           71 ------FRSLIPSYIRDSSVAVVVYDVAS   93 (208)
Q Consensus        71 ------~~~~~~~~~~~~d~~i~v~d~~~   93 (208)
                            ........++.+|++|+|+|+.+
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccC
Confidence                  22234556889999999999864

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.20  E-value=3.2e-11  Score=91.53  Aligned_cols=101  Identities=15%  Similarity=0.088  Sum_probs=57.1

Q ss_pred             EEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCC--HHHH
Q 028507           60 LQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVS--IEEG  137 (208)
Q Consensus        60 ~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~--~~~~  137 (208)
                      +.|++|.|...-.   ......+|.+++|.+....+.......   -+.....     ++|+||.|+.......  ..+.
T Consensus       149 ~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~---gi~e~aD-----i~VvNKaD~~~~~~~~~~~~~~  217 (327)
T d2p67a1         149 VVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKK---GLMEVAD-----LIVINKDDGDNHTNVAIARHMY  217 (327)
T ss_dssp             EEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCH---HHHHHCS-----EEEECCCCTTCHHHHHHHHHHH
T ss_pred             eEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhch---hhhcccc-----EEEEEeecccchHHHHHHHHHH
Confidence            5566665532211   124567899999988754433333222   3333222     7778999986432211  1122


Q ss_pred             HHHHH-------hcCCeEEEeecCCCCChHHHHHHHHHHcC
Q 028507          138 EAKSR-------ELNVMFIETSAKAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       138 ~~~~~-------~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  171 (208)
                      ....+       .+..+++.+||.+|+|++++++.|.+...
T Consensus       218 ~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         218 ESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             HHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            22222       12348999999999999999999987654

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.19  E-value=1.6e-10  Score=86.85  Aligned_cols=125  Identities=18%  Similarity=0.241  Sum_probs=75.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEE----------CC--------------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYL----------ED--------------------   55 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~----------~~--------------------   55 (208)
                      ....+|+|+|..++|||||+|+|++..+ +....+++...........          .+                    
T Consensus        24 ~~~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (299)
T d2akab1          24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHh
Confidence            4567899999999999999999999886 4444444432221111100          00                    


Q ss_pred             -------------------EEEEEEEEEcCCchh-------------hhhchhhhccCCc-EEEEEEeCCChhhHHHHHH
Q 028507           56 -------------------RTVRLQLWDTAGQER-------------FRSLIPSYIRDSS-VAVVVYDVASRQSFLNTSK  102 (208)
Q Consensus        56 -------------------~~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~  102 (208)
                                         ....+.++|+||...             ...+...++...+ ++++|.+++...+......
T Consensus       104 ~~~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~  183 (299)
T d2akab1         104 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             hCCCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHH
Confidence                               001388999999542             1233445556666 5666777765444444444


Q ss_pred             HHHHHHHhcCCCCcEEEEEeCCCCCcccCCCH
Q 028507          103 WIDEVRTERGSDVIIVLVGNKTDLVEKRQVSI  134 (208)
Q Consensus       103 ~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~  134 (208)
                      +...+.   ....++++|+||+|..++.....
T Consensus       184 ~~~~~~---~~~~r~i~Vltk~D~~~~~~~~~  212 (299)
T d2akab1         184 IAKEVD---PQGQRTIGVITKLDLMDEGTDAR  212 (299)
T ss_dssp             HHHHHC---TTCSSEEEEEECGGGSCTTCCCH
T ss_pred             HHHHhC---cCCCceeeEEeccccccchhhHH
Confidence            444332   23367899999999987654433

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.18  E-value=3.8e-11  Score=91.02  Aligned_cols=104  Identities=11%  Similarity=0.064  Sum_probs=62.0

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEG  137 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~  137 (208)
                      +.+.|+.|.|...-.   ......+|.+++|......+...   .....+.....     ++|+||.|+.+.........
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ---~~k~gilE~aD-----i~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQ---GIKKGIFELAD-----MIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC---------CCTTHHHHCS-----EEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhh---hhhhhHhhhhh-----eeeEeccccccchHHHHHHH
Confidence            357788887743222   12345689999999987654333   32233333222     78889999865433221111


Q ss_pred             HHHHHh----------cCCeEEEeecCCCCChHHHHHHHHHHcCC
Q 028507          138 EAKSRE----------LNVMFIETSAKAGFNIKPLFRKIAAALPG  172 (208)
Q Consensus       138 ~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  172 (208)
                      ..+...          +..+++.+||.++.|+++++++|.+....
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~  257 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSK  257 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHH
Confidence            111111          23589999999999999999999876643

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.17  E-value=3.1e-11  Score=91.77  Aligned_cols=83  Identities=16%  Similarity=0.173  Sum_probs=46.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEE----E------------------CCEEEEEEEEEcCC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMY----L------------------EDRTVRLQLWDTAG   67 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~----~------------------~~~~~~~~i~D~~G   67 (208)
                      |+|++||.|+||||||+|+|++.+......|+++++.......    .                  ......+.++|+||
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            6899999999999999999998776555556555543222111    0                  01235799999999


Q ss_pred             chh-------hhhchhhhccCCcEEEEEEeCC
Q 028507           68 QER-------FRSLIPSYIRDSSVAVVVYDVA   92 (208)
Q Consensus        68 ~~~-------~~~~~~~~~~~~d~~i~v~d~~   92 (208)
                      .-.       ........++.+|++++|+|+.
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            533       1222334468999999999986

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=99.00  E-value=1.3e-09  Score=82.17  Aligned_cols=121  Identities=21%  Similarity=0.304  Sum_probs=68.9

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEE------------------------------------
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSK------------------------------------   49 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~------------------------------------   49 (208)
                      ..-.+|+|+|..++|||||+|+|++..+ +....+++.......                                    
T Consensus        22 ~~lP~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (306)
T d1jwyb_          22 LDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREE  101 (306)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccccCCEEEEEecCCcccCccchhhhhHHhhcCCceecCHHHHHHH
Confidence            3346899999999999999999998876 333333322111111                                    


Q ss_pred             ----------------------EEEECCEEEEEEEEEcCCchh-------------hhhchhhhccCCcEEEEEE-eCCC
Q 028507           50 ----------------------TMYLEDRTVRLQLWDTAGQER-------------FRSLIPSYIRDSSVAVVVY-DVAS   93 (208)
Q Consensus        50 ----------------------~~~~~~~~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~-d~~~   93 (208)
                                            .+.... ...+.|+|+||...             ...+...++..++.+|+++ +...
T Consensus       102 i~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~  180 (306)
T d1jwyb_         102 IIRDTDRMTGKNKGISAQPINLKIYSPH-VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANT  180 (306)
T ss_dssp             HHHHCC--------CCCCCEEEEEEETT-SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSS
T ss_pred             HHHHHHHhcCCCCcccccceEEEecCCC-CCCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccc
Confidence                                  000000 12488999999543             2245566788888766554 5543


Q ss_pred             hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccC
Q 028507           94 RQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQ  131 (208)
Q Consensus        94 ~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~  131 (208)
                      ...-.....+...+   ......+++|+||+|..+...
T Consensus       181 ~~~~~~~~~~~~~~---~~~~~r~i~Vitk~D~~~~~~  215 (306)
T d1jwyb_         181 DLANSDALQLAKEV---DPEGKRTIGVITKLDLMDKGT  215 (306)
T ss_dssp             CSTTCSHHHHHHHH---CSSCSSEEEEEECTTSSCSSC
T ss_pred             cccccHHHHHHHHh---CcCCCeEEEEEeccccccchh
Confidence            22222233333333   223367999999999876544

>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=98.57  E-value=3.4e-08  Score=73.02  Aligned_cols=59  Identities=20%  Similarity=0.294  Sum_probs=36.8

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcCcC-CCCCCCccceeeEEEEEEECCEEEEEEEEEcCCch
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYDKF-DNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE   69 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   69 (208)
                      ....++|+|+|.||||||||+|+|.+.+. .....|.++.+.  ..+..+.   .+.++||||.-
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~--~~i~~~~---~~~l~DTPGi~  168 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQ--QWVKVGK---ELELLDTPGIL  168 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEECCcccccccc--eEEECCC---CeEEecCCCcc
Confidence            34679999999999999999999998765 333444444332  2233332   38999999943

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.48  E-value=9.7e-07  Score=60.37  Aligned_cols=23  Identities=26%  Similarity=0.632  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      +||+|+|++|+|||||++.+.+.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            68999999999999999998853

>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=98.46  E-value=2.2e-07  Score=66.04  Aligned_cols=87  Identities=20%  Similarity=0.222  Sum_probs=61.7

Q ss_pred             hhccCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHH--hcCCeEEEeec
Q 028507           77 SYIRDSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSR--ELNVMFIETSA  153 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~--~~~~~~~~~sa  153 (208)
                      -.+.+.|.+++|+++.+|+ +...+.+++-....   .+++.+||+||+|+.++...  .....+..  ..+++++.+|+
T Consensus         6 P~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~--~~~~~~~~~~~~~~~v~~vSa   80 (225)
T d1u0la2           6 PHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSA   80 (225)
T ss_dssp             TTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCT
T ss_pred             CCcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCCHHHH--HHHHHhhcccccceeEEEecc
Confidence            3467899999999998775 34556665554443   24899999999999764432  22223333  33578999999


Q ss_pred             CCCCChHHHHHHHHH
Q 028507          154 KAGFNIKPLFRKIAA  168 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~  168 (208)
                      +++.+++++.+++..
T Consensus        81 ~~~~g~~~L~~~l~~   95 (225)
T d1u0la2          81 KTGMGIEELKEYLKG   95 (225)
T ss_dssp             TTCTTHHHHHHHHSS
T ss_pred             ccchhHhhHHHHhcC
Confidence            999999998887754

>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=98.44  E-value=4.1e-08  Score=69.86  Aligned_cols=61  Identities=15%  Similarity=0.041  Sum_probs=36.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCCC------CCCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFDN------TYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      .-..+++|++|||||||+|+|.......      ......-.+.....+.++++   ..++||||...+.
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~~  161 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANLE  161 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTCC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCcccccc
Confidence            3467899999999999999998653211      11111111222233444432   5899999976543

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.27  E-value=8.4e-08  Score=68.45  Aligned_cols=58  Identities=17%  Similarity=0.131  Sum_probs=32.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCcCC------CC--CCCccceeeEEEEEEECCEEEEEEEEEcCCchhhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDKFD------NT--YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFR   72 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~~~------~~--~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   72 (208)
                      .-..+++|++|||||||+|+|......      ..  ...+++..  ...+..++    -.|+||||...+.
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~--~~l~~~~g----g~iiDTPG~r~~~  162 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRH--VELIHTSG----GLVADTPGFSSLE  162 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-------------------CCC--CCEEEETT----EEEESSCSCSSCC
T ss_pred             cceEEEECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeee--EEEEecCC----CEEEECCcccccc
Confidence            345789999999999999999865321      11  11112211  12223454    2588999976543

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.25  E-value=8.7e-06  Score=57.84  Aligned_cols=72  Identities=14%  Similarity=0.148  Sum_probs=39.4

Q ss_pred             CCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcC--CeEEEeecCCCC
Q 028507           81 DSSVAVVVYDVASRQSFLNT-SKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELN--VMFIETSAKAGF  157 (208)
Q Consensus        81 ~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~  157 (208)
                      ..+++|.|+|+........- ..+...+. .+.     ++|+||+|+.++.    ++.+...+.++  +++++++ .-..
T Consensus       121 ~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~-~AD-----~ivlNK~Dl~~~~----~~~~~~l~~lNP~a~Ii~~~-~g~v  189 (222)
T d1nija1         121 LLDGVIALVDAVHADEQMNQFTIAQSQVG-YAD-----RILLTKTDVAGEA----EKLHERLARINARAPVYTVT-HGDI  189 (222)
T ss_dssp             EEEEEEEEEETTTHHHHHHHCHHHHHHHH-TCS-----EEEEECTTTCSCT----HHHHHHHHHHCSSSCEEECC-SSCC
T ss_pred             cccchhhhhhhhhhhhhhhhhHHHHHHHH-hCC-----cccccccccccHH----HHHHHHHHHHhCCCeEEEee-CCcc
Confidence            35889999999865332221 11222232 222     6778999997532    34455555544  5777655 3333


Q ss_pred             ChHHHH
Q 028507          158 NIKPLF  163 (208)
Q Consensus       158 ~i~~~~  163 (208)
                      .+..+|
T Consensus       190 ~~~~ll  195 (222)
T d1nija1         190 DLGLLF  195 (222)
T ss_dssp             CGGGGS
T ss_pred             CHHHhh
Confidence            554443

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.20  E-value=4.7e-06  Score=58.43  Aligned_cols=91  Identities=19%  Similarity=0.149  Sum_probs=52.7

Q ss_pred             EEEEEEEcCCchhhhhc----hhhh---c-----cCCcEEEEEEeCCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 028507           58 VRLQLWDTAGQERFRSL----IPSY---I-----RDSSVAVVVYDVAS-RQSFLNTSKWIDEVRTERGSDVIIVLVGNKT  124 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~----~~~~---~-----~~~d~~i~v~d~~~-~~s~~~~~~~~~~i~~~~~~~~piivv~nK~  124 (208)
                      ..+.++||+|...+...    ...+   +     ...+-.++|+|++. .+....+..++..+.      + --+|+||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~------~-~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVG------L-TGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHHC------C-SEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhccC------C-ceEEEecc
Confidence            35899999994432211    1111   1     24567888899873 444454555444442      2 24566999


Q ss_pred             CCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       125 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      |....-    -.+...+...+.++.+++  +|++.++
T Consensus       162 Det~~~----G~~l~~~~~~~~Pi~~i~--~Gq~p~D  192 (207)
T d1okkd2         162 DGTAKG----GVLIPIVRTLKVPIKFVG--VGEGPDD  192 (207)
T ss_dssp             TSSCCC----TTHHHHHHHHCCCEEEEE--CSSSTTC
T ss_pred             CCCCCc----cHHHHHHHHHCCCEEEEe--CCCChHh
Confidence            964332    344556777888887777  4655443

>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=98.18  E-value=6.1e-06  Score=58.10  Aligned_cols=92  Identities=14%  Similarity=0.044  Sum_probs=52.5

Q ss_pred             EEEEEEEcCCchhhhhc----hhhh---cc-----CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           58 VRLQLWDTAGQERFRSL----IPSY---IR-----DSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~----~~~~---~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                      +.+.++||+|...+...    ...+   +.     ..+-.++|+|++.  ..+.+..........    -+--+|+||.|
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~--~~~~~~~~~~~~~~~----~~~~lI~TKlD  167 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT--GQNGLVQAKIFKEAV----NVTGIILTKLD  167 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG--HHHHHHHHHHHHHHS----CCCEEEEECGG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeecccc--Ccchhhhhhhhcccc----CCceEEEeccc
Confidence            35899999994322111    1111   11     2467889999873  233333333322221    12245569999


Q ss_pred             CCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          126 LVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      ...    ..-.+...+...+.|+.+++  +|+.+++
T Consensus       168 e~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         168 GTA----KGGITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GCS----CTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCC----cccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            532    23456677788899988887  6777654

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.17  E-value=4.1e-06  Score=58.82  Aligned_cols=91  Identities=13%  Similarity=0.117  Sum_probs=52.8

Q ss_pred             EEEEEEEcCCchhhhh----ch---hhhcc-----CCcEEEEEEeCCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 028507           58 VRLQLWDTAGQERFRS----LI---PSYIR-----DSSVAVVVYDVAS-RQSFLNTSKWIDEVRTERGSDVIIVLVGNKT  124 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~----~~---~~~~~-----~~d~~i~v~d~~~-~~s~~~~~~~~~~i~~~~~~~~piivv~nK~  124 (208)
                      +.+.++||+|......    ..   ...+.     ..+-.++|.|++. .+....+..++..+       -+--+|+||.
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~~~~lIlTKl  164 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV-------GLTGITLTKL  164 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS-------CCCEEEEECC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc-------CCceEEEeec
Confidence            3589999999432211    01   11122     2468888999873 33333333333322       1224566999


Q ss_pred             CCCcccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          125 DLVEKRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       125 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                      |....    .-.+...+...++|+.+++  +|+++++
T Consensus       165 De~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         165 DGTAK----GGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TTCTT----TTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            96332    3455666778899988887  7777654

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.08  E-value=1.9e-06  Score=60.66  Aligned_cols=91  Identities=13%  Similarity=0.120  Sum_probs=54.0

Q ss_pred             EEEEEEEcCCchhhhh------chhhh--ccCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCc
Q 028507           58 VRLQLWDTAGQERFRS------LIPSY--IRDSSVAVVVYDVASR-QSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVE  128 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~------~~~~~--~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~  128 (208)
                      ..+.++||+|...+..      ....+  .-..+-+++|++++.. +..+.+..++.    ..  ++ --+|+||.|.. 
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~----~~--~~-~~lI~TKlDet-  166 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQ----AS--KI-GTIIITKMDGT-  166 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHH----HC--TT-EEEEEECTTSC-
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhc----cc--Cc-ceEEEecccCC-
Confidence            3589999999532221      11111  2245678888888743 23333222222    21  12 24557999953 


Q ss_pred             ccCCCHHHHHHHHHhcCCeEEEeecCCCCChHH
Q 028507          129 KRQVSIEEGEAKSRELNVMFIETSAKAGFNIKP  161 (208)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  161 (208)
                         ...-.+...+.+.++++.+++  +|+++++
T Consensus       167 ---~~~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         167 ---AKGGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             ---SCHHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ---CcccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence               235677788888999988887  6777654

>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=98.08  E-value=4.8e-06  Score=61.15  Aligned_cols=90  Identities=10%  Similarity=0.107  Sum_probs=62.9

Q ss_pred             chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHHHHHHhcCCeEEEeec
Q 028507           74 LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGEAKSRELNVMFIETSA  153 (208)
Q Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa  153 (208)
                      .....+..+|++|+|+|+-+|.+...  ..+..+   . .++|+++|+||+|+.+...  ..+...+....+...+.+|+
T Consensus         8 ~i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~---~-~~Kp~IlVlNK~DLv~~~~--~~~w~~~f~~~~~~~i~isa   79 (273)
T d1puja_           8 EVTEKLKLIDIVYELVDARIPMSSRN--PMIEDI---L-KNKPRIMLLNKADKADAAV--TQQWKEHFENQGIRSLSINS   79 (273)
T ss_dssp             HHHHHGGGCSEEEEEEETTSTTTTSC--HHHHHH---C-SSSCEEEEEECGGGSCHHH--HHHHHHHHHTTTCCEEECCT
T ss_pred             HHHHHHHhCCEEEEEEECCCCCCCCC--HHHHHH---H-cCCCeEEEEECccCCchHH--HHHHHHHHHhcCCccceeec
Confidence            34556899999999999988765443  222222   2 2589999999999976542  22233334455678999999


Q ss_pred             CCCCChHHHHHHHHHHcC
Q 028507          154 KAGFNIKPLFRKIAAALP  171 (208)
Q Consensus       154 ~~~~~i~~~~~~l~~~~~  171 (208)
                      .++.+..++...+.+.+.
T Consensus        80 ~~~~~~~~~~~~~~~~l~   97 (273)
T d1puja_          80 VNGQGLNQIVPASKEILQ   97 (273)
T ss_dssp             TTCTTGGGHHHHHHHHHH
T ss_pred             ccCCCccccchhhhhhhh
Confidence            999999888777766554

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.08  E-value=6.3e-07  Score=63.82  Aligned_cols=87  Identities=17%  Similarity=0.203  Sum_probs=60.3

Q ss_pred             hhccCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCcccCCCHHHHH---HHHHhcCCeEEEee
Q 028507           77 SYIRDSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKRQVSIEEGE---AKSRELNVMFIETS  152 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~~~~~~~~~---~~~~~~~~~~~~~s  152 (208)
                      -.+.+.|.+++|+++.+|+ +...+.+++-....   .+++.+||+||+|+.+..+. .....   ......|++++.+|
T Consensus         6 P~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~-~~~~~~~~~~y~~~g~~v~~~S   81 (231)
T d1t9ha2           6 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDT-EDTIQAYAEDYRNIGYDVYLTS   81 (231)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHH-HHHHHHHHHHHHHHTCCEEECC
T ss_pred             CCccccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccHHH-HHHHHHHHHHHhhccccceeee
Confidence            3467999999999998775 34555655544433   35888999999999764321 12222   22345689999999


Q ss_pred             cCCCCChHHHHHHHH
Q 028507          153 AKAGFNIKPLFRKIA  167 (208)
Q Consensus       153 a~~~~~i~~~~~~l~  167 (208)
                      +.++.|++++.++|.
T Consensus        82 a~~~~gl~~L~~~l~   96 (231)
T d1t9ha2          82 SKDQDSLADIIPHFQ   96 (231)
T ss_dssp             HHHHTTCTTTGGGGT
T ss_pred             cCChhHHHHHHHhhc
Confidence            999999888776553

>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=97.99  E-value=4e-06  Score=58.84  Aligned_cols=84  Identities=19%  Similarity=0.129  Sum_probs=48.6

Q ss_pred             EEEEEEEcCCchhhhhc----hhhh--ccCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCccc
Q 028507           58 VRLQLWDTAGQERFRSL----IPSY--IRDSSVAVVVYDVASRQ-SFLNTSKWIDEVRTERGSDVIIVLVGNKTDLVEKR  130 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~D~~~~~  130 (208)
                      ..+.++||+|.......    +..+  ..+.+-+++|.|++... ..+.+..+++.+    +  + --+|++|.|...  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~----~--~-~~~I~TKlDe~~--  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV----G--V-TGLVLTKLDGDA--  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT----C--C-CEEEEECGGGCS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC----C--C-CeeEEeecCccc--
Confidence            35899999994432221    1111  33567889999987442 222222222222    1  1 245669999532  


Q ss_pred             CCCHHHHHHHHHhcCCeEEEee
Q 028507          131 QVSIEEGEAKSRELNVMFIETS  152 (208)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~s  152 (208)
                        ..-.+...+...+.|+.+++
T Consensus       164 --~~G~~l~~~~~~~~Pi~~i~  183 (207)
T d1ls1a2         164 --RGGAALSARHVTGKPIYFAG  183 (207)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEC
T ss_pred             --cchHHHHHHHHHCCCEEEEe
Confidence              23566777788898887775

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.80  E-value=6.8e-06  Score=55.64  Aligned_cols=26  Identities=19%  Similarity=0.254  Sum_probs=23.0

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .++.++|+|.|++||||||+.+.|..
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            36779999999999999999998864

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.78  E-value=7.6e-06  Score=54.21  Aligned_cols=25  Identities=20%  Similarity=0.413  Sum_probs=20.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+++ |+|.|+||||||||.+.|...
T Consensus         1 Mkkl-Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           1 MKKI-ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             CCEE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEE-EEEECCCCCCHHHHHHHHHHh
Confidence            3444 788999999999999988643

>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=97.74  E-value=8e-06  Score=55.14  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -.++|+|+|+|||||||+.+.|..
T Consensus         3 ~~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           3 LLPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999998863

>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=97.69  E-value=8.1e-06  Score=55.71  Aligned_cols=22  Identities=23%  Similarity=0.501  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -+|+|.|++|+|||||.++|..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999874

>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=97.68  E-value=1e-05  Score=54.45  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|+|+|++|||||||+++|..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            488999999999999999984

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.60  E-value=2e-05  Score=54.32  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=21.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++.++|+|+|+|||||||+...|..
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999988763

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.56  E-value=1.9e-05  Score=53.14  Aligned_cols=22  Identities=18%  Similarity=0.480  Sum_probs=18.7

Q ss_pred             eeE-EEEcCCCCCHHHHHHHhhc
Q 028507           10 YKL-VFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i-~vvG~~~~GKstli~~l~~   31 (208)
                      ||| .|+|.+|||||||+++|..
T Consensus         1 Mkii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           1 MNVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHH
Confidence            355 5999999999999998874

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.55  E-value=2.2e-05  Score=53.61  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |||+|+|+|||||||+...|..
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            5899999999999999987753

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.54  E-value=2.3e-05  Score=52.71  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|+|.|++|+||||+.+.|..
T Consensus         4 lI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            388899999999999998874

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.53  E-value=3e-05  Score=53.54  Aligned_cols=25  Identities=16%  Similarity=0.308  Sum_probs=22.4

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+-++|+|+|+|||||||+...|..
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHH
Confidence            4669999999999999999998874

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.49  E-value=2.9e-05  Score=53.09  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      |+|+|+|+|||||||+...|..
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            6899999999999999987764

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.46  E-value=3.4e-05  Score=52.65  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|+|+|+||+||||+...|..
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            6899999999999999988763

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.45  E-value=3.2e-05  Score=52.70  Aligned_cols=21  Identities=24%  Similarity=0.464  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      |||+|+|+|||||||+...|.
T Consensus         1 m~I~i~G~pGSGKsT~~~~La   21 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIM   21 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            689999999999999998875

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.42  E-value=3.7e-05  Score=52.90  Aligned_cols=22  Identities=18%  Similarity=0.238  Sum_probs=19.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      .++|+|.|++|+||||+...|.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La   24 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIK   24 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4789999999999999998775

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.38  E-value=5.1e-05  Score=51.76  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=20.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .++|+|+|+|||||||+...|..
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            47899999999999999998863

>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=97.37  E-value=9.9e-05  Score=53.95  Aligned_cols=60  Identities=20%  Similarity=0.159  Sum_probs=38.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCcCCCC-----CCCccceeeEEEEEEECCEEEEEEEEEcCCchh
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDKFDNT-----YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER   70 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   70 (208)
                      .=|.|+|+.++|||+|+|.|.+....-.     ...|.|+-.....+ .++....+.++||.|...
T Consensus        33 ~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~~   97 (277)
T d1f5na2          33 VVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLGD   97 (277)
T ss_dssp             EEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBCC
T ss_pred             EEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEecccccc
Confidence            3577889999999999999997654211     22333432222222 133345789999999654

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.36  E-value=6.9e-05  Score=51.64  Aligned_cols=24  Identities=17%  Similarity=0.234  Sum_probs=20.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +...|+|+|+|||||||+...|..
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345778899999999999988864

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.34  E-value=7.2e-05  Score=51.05  Aligned_cols=25  Identities=32%  Similarity=0.566  Sum_probs=20.7

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+++ |+|+||+|+||+||+++|...
T Consensus         2 m~k~-ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           2 MRKT-LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CCCE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCc-EEEECCCCCCHHHHHHHHHHh
Confidence            3444 889999999999999999853

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.28  E-value=6.6e-05  Score=49.82  Aligned_cols=21  Identities=19%  Similarity=0.415  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      +|+|+|++|+||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999988864

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.27  E-value=0.00012  Score=49.65  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=20.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ....-|+++|.||+||||+..++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3446788899999999999998864

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.22  E-value=8.6e-05  Score=51.61  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-|+++|.|||||||+.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999998873

>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=97.21  E-value=9.2e-05  Score=52.96  Aligned_cols=24  Identities=13%  Similarity=0.117  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =+++|+|++|+|||||++.+.+-.
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            468999999999999999888654

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.21  E-value=8e-05  Score=50.01  Aligned_cols=21  Identities=33%  Similarity=0.414  Sum_probs=18.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      .+|+++|++|+||||+.+.|.
T Consensus         2 p~IvliG~~G~GKSTig~~La   22 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLA   22 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHH
Confidence            479999999999999988775

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=9e-05  Score=50.14  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .|.|.|++|+|||||+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            488999999999999998873

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.20  E-value=9.6e-05  Score=50.70  Aligned_cols=21  Identities=19%  Similarity=0.586  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+|+||+||||+||+++|...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999998754

>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=97.18  E-value=0.00012  Score=51.41  Aligned_cols=24  Identities=17%  Similarity=0.324  Sum_probs=21.8

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhh
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      |+.+.|+|-||+||||||+...|.
T Consensus         1 Mk~i~IaIdGp~GsGKgT~ak~La   24 (223)
T d1q3ta_           1 MKTIQIAIDGPASSGKSTVAKIIA   24 (223)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHH
Confidence            677899999999999999998876

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.15  E-value=0.00011  Score=50.08  Aligned_cols=21  Identities=24%  Similarity=0.471  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+|+||+|||||||++.|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678899999999999998744

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.15  E-value=0.00011  Score=50.12  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=17.7

Q ss_pred             eeEEE-EcCCCCCHHHHHHHhh
Q 028507           10 YKLVF-LGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~v-vG~~~~GKstli~~l~   30 (208)
                      |||++ .|.+||||||+++.|.
T Consensus         1 mkiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            46765 5999999999999885

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.13  E-value=0.00012  Score=49.61  Aligned_cols=19  Identities=32%  Similarity=0.321  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      |+|.|++|+||||+++.|.
T Consensus         4 I~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999999875

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.11  E-value=0.00013  Score=48.82  Aligned_cols=20  Identities=25%  Similarity=0.544  Sum_probs=18.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      +|+++|++|+||||+...|.
T Consensus         2 ~I~liG~~GsGKsTi~k~La   21 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALA   21 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            58999999999999988775

>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=97.10  E-value=0.00013  Score=52.61  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CEEEEECCCCChHHHHHHHHhccc
Confidence            379999999999999999887543

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.08  E-value=0.00015  Score=51.46  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -++++|++|+|||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999988754

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.08  E-value=0.00024  Score=53.04  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=21.2

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .+|+|.|+.|+|||||++.|+..-
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            469999999999999999998644

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.07  E-value=0.00018  Score=49.46  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|+|+|+|||||||....|..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999988763

>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=97.07  E-value=0.00021  Score=51.06  Aligned_cols=25  Identities=20%  Similarity=0.234  Sum_probs=21.2

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .=.++|+|++|+|||||++.+.+-.
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3478999999999999999887543

>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=97.06  E-value=0.00018  Score=49.95  Aligned_cols=23  Identities=22%  Similarity=0.367  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|+.|+|||||++.+.+..
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            47899999999999999998654

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.06  E-value=0.00016  Score=49.77  Aligned_cols=20  Identities=20%  Similarity=0.580  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCHHHHHHHhhc
Q 028507           12 LVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~   31 (208)
                      |+|+||+|||||||.++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998863

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.06  E-value=0.00016  Score=50.46  Aligned_cols=22  Identities=18%  Similarity=0.333  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      =|+|+||+|||||||+++|...
T Consensus         4 livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            3788899999999999999754

>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=97.05  E-value=0.00016  Score=51.95  Aligned_cols=24  Identities=13%  Similarity=0.158  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        41 e~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhccc
Confidence            368999999999999999887644

>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=97.05  E-value=0.00016  Score=51.27  Aligned_cols=23  Identities=13%  Similarity=0.241  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCcchhhHhccCCC
Confidence            47899999999999999777643

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.03  E-value=0.00017  Score=48.26  Aligned_cols=21  Identities=19%  Similarity=0.369  Sum_probs=17.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      =++|+|++|+||||+.+.|..
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            355689999999999998864

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.00  E-value=0.0003  Score=47.25  Aligned_cols=23  Identities=17%  Similarity=0.356  Sum_probs=19.8

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +-+-|.|+|.+|+||||+.+.|.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            44678899999999999988776

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.99  E-value=0.0002  Score=50.97  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++++|+.|+|||||++.+.+-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            46789999999999999998654

>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=96.99  E-value=0.0003  Score=48.37  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=19.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .--|+|+|+|||||||+...|..
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            44578889999999999998864

>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=96.98  E-value=0.00019  Score=52.52  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      =.++|+|+.|+|||||++.+.+-.
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhCCC
Confidence            358999999999999999988644

>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=96.98  E-value=0.0002  Score=48.05  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      =|+|.|++|+||||+.+.|..
T Consensus         6 iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            377889999999999988864

>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=96.97  E-value=0.00021  Score=50.86  Aligned_cols=23  Identities=30%  Similarity=0.352  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++++|++|+|||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47899999999999999888654

>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=96.96  E-value=0.00012  Score=50.12  Aligned_cols=25  Identities=16%  Similarity=0.193  Sum_probs=21.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+.+-|.++|++||||||+.+.|..
T Consensus        17 ~~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          17 FRGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3557788999999999999998863

>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=96.94  E-value=0.00017  Score=51.99  Aligned_cols=25  Identities=20%  Similarity=0.215  Sum_probs=20.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .=+++|+|++|+|||||++.+.+-.
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhcC
Confidence            3478999999999999998777533

>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=96.90  E-value=0.00016  Score=51.14  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++++|++|+|||||++.+.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            47899999999999999998754

>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=96.90  E-value=0.0003  Score=48.37  Aligned_cols=25  Identities=32%  Similarity=0.543  Sum_probs=21.2

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+-++++||+||+|||+++..|...
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHH
Confidence            4458999999999999999887743

>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=96.89  E-value=0.00027  Score=50.35  Aligned_cols=23  Identities=22%  Similarity=0.330  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++++|++|+|||||++.+.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            57899999999999999888654

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.87  E-value=0.00025  Score=50.53  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            47899999999999999888654

>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=96.85  E-value=0.0003  Score=47.25  Aligned_cols=20  Identities=15%  Similarity=0.388  Sum_probs=17.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      .|+++|++|+||||+.+.|.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            37899999999999998875

>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=96.82  E-value=0.00027  Score=50.92  Aligned_cols=22  Identities=23%  Similarity=0.397  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -|++.|+||+|||||...+...
T Consensus        34 ~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999988753

>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=96.81  E-value=0.00043  Score=46.26  Aligned_cols=21  Identities=24%  Similarity=0.448  Sum_probs=17.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      =|+|.|++|+||||+.+.|..
T Consensus         5 iI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           5 MIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            355669999999999998874

>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=96.81  E-value=0.00045  Score=47.11  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=20.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ..+=|+|.|++|||||||.+.|.
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~   43 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLS   43 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45668899999999999999886

>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=96.80  E-value=0.00033  Score=49.95  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++++|+.|+|||||++.+.+-.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998754

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.79  E-value=0.00024  Score=50.43  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -++++|+.|+|||||++.+.+-
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3789999999999999999873

>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=96.78  E-value=0.00044  Score=47.43  Aligned_cols=27  Identities=19%  Similarity=0.394  Sum_probs=22.8

Q ss_pred             CCCCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            5 SALAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         5 ~~~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +..+.+-|+|-|..||||||+++.|..
T Consensus         5 ~~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           5 EGTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            345668899999999999999998874

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.78  E-value=0.0011  Score=43.79  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-|++-|+-|+|||||++.+...
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCccHHHHHHHHHhh
Confidence            45788899999999999998854

>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=96.78  E-value=0.00042  Score=49.31  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=20.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      -++++|+.|+|||||++.+.+-..
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            468999999999999999987653

>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=96.76  E-value=0.00036  Score=47.94  Aligned_cols=20  Identities=15%  Similarity=0.358  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHhhc
Q 028507           12 LVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~   31 (208)
                      |+|+|+|||||||+...|..
T Consensus        11 I~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999998864

>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=96.75  E-value=0.00042  Score=50.16  Aligned_cols=25  Identities=28%  Similarity=0.523  Sum_probs=21.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+-++++||++|+|||+++..|...
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHH
Confidence            3458999999999999999987643

>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=96.73  E-value=0.00041  Score=49.98  Aligned_cols=23  Identities=13%  Similarity=0.377  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|+|++|+|||||++.+.+-.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            57899999999999999998643

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.68  E-value=0.00045  Score=49.00  Aligned_cols=23  Identities=22%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.+++.||||+||||+.+.+...
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988753

>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=96.65  E-value=0.00023  Score=50.75  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=20.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      .++|+|++|+|||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            57899999999999999988754

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.65  E-value=0.0005  Score=48.69  Aligned_cols=23  Identities=17%  Similarity=0.353  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      ..+++.||||+||||+.+.+...
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHhc
Confidence            35899999999999999988743

>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=96.61  E-value=0.00063  Score=48.92  Aligned_cols=23  Identities=17%  Similarity=0.241  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++++|+.|+|||||++.+.+-.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            36899999999999999998764

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.47  E-value=0.00086  Score=47.20  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+++.|++|+||||+++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999988743

>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=96.40  E-value=0.0011  Score=46.10  Aligned_cols=21  Identities=19%  Similarity=0.457  Sum_probs=18.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      +-|+|.|++|||||||.+.|.
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~   23 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIV   23 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            668999999999999998875

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.37  E-value=0.001  Score=47.59  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -.++|.|++|+|||++++.+...-
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999887543

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.37  E-value=0.001  Score=47.36  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.+++.||+|+||||+++.+...
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            46889999999999999988754

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.29  E-value=0.0011  Score=47.36  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=20.1

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ...|++.||||+|||+|.+.+..
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhh
Confidence            35699999999999999998874

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.28  E-value=0.0011  Score=48.98  Aligned_cols=22  Identities=32%  Similarity=0.558  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -.++++||||+|||.|.+++..
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhh
Confidence            5689999999999999998874

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.27  E-value=0.0013  Score=45.42  Aligned_cols=21  Identities=14%  Similarity=0.384  Sum_probs=18.5

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      +-|+|-|..||||||+++.|.
T Consensus         1 mlI~ieG~dGsGKST~~~~L~   21 (208)
T d1gsia_           1 MLIAIEGVDGAGKRTLVEKLS   21 (208)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            358899999999999998776

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.24  E-value=0.0011  Score=47.55  Aligned_cols=22  Identities=32%  Similarity=0.280  Sum_probs=18.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      --|+|.|++|+|||||+.++..
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            3577889999999999998864

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.21  E-value=0.0011  Score=47.84  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      +.+.|+||+|||++++.+...
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            345699999999999988743

>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=96.18  E-value=0.0012  Score=47.00  Aligned_cols=22  Identities=18%  Similarity=0.375  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+++.|++|+||||++..+...
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999988754

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.11  E-value=0.0016  Score=45.81  Aligned_cols=22  Identities=32%  Similarity=0.551  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .++|.||+|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4899999999999999988743

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.09  E-value=0.0016  Score=46.46  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|++.|+||+|||+|++.+..
T Consensus        44 giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHH
Confidence            489999999999999999985

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.07  E-value=0.0024  Score=43.42  Aligned_cols=23  Identities=13%  Similarity=0.205  Sum_probs=19.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+=|+|.|.+||||||+.+.|..
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36788999999999999998764

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.04  E-value=0.0018  Score=45.30  Aligned_cols=21  Identities=19%  Similarity=0.382  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+++.||+|+||||+++.+..
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            589999999999999987763

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.04  E-value=0.0023  Score=44.36  Aligned_cols=24  Identities=13%  Similarity=0.213  Sum_probs=20.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +..-|.|.|.||+|||||.+.|..
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456688899999999999998863

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.0019  Score=44.77  Aligned_cols=20  Identities=15%  Similarity=0.285  Sum_probs=17.1

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      =|+|.|||||||+|+-..|.
T Consensus         5 iI~I~GppGSGKgT~ak~La   24 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMA   24 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46777999999999988776

>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=95.98  E-value=0.0019  Score=45.23  Aligned_cols=22  Identities=36%  Similarity=0.591  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .+++.|++|+||||++..+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            4889999999999999988754

>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=95.96  E-value=0.0018  Score=50.28  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=19.8

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +-+|+++||+|+|||-|.++|.
T Consensus        49 ksNILliGPTGvGKTlLAr~LA   70 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLA   70 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHHHHH
Confidence            4489999999999999999885

>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=95.91  E-value=0.0015  Score=49.85  Aligned_cols=22  Identities=36%  Similarity=0.638  Sum_probs=18.6

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhh
Q 028507            9 KYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +=++++||+||||||+++..|.
T Consensus        43 k~n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          43 KNNPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHH
T ss_pred             CCCCeEECCCCCCHHHHHHHHH
Confidence            4468999999999999997665

>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=95.89  E-value=0.0022  Score=46.02  Aligned_cols=23  Identities=22%  Similarity=0.336  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -.|++.||||+|||+|++.+...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHHH
Confidence            35899999999999999988753

>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=95.88  E-value=0.0023  Score=45.96  Aligned_cols=21  Identities=19%  Similarity=0.319  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .+++.||||+|||++++.+..
T Consensus        47 ~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEeeCCCCCCccHHHHHHHH
Confidence            489999999999999998874

>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=95.58  E-value=0.003  Score=45.48  Aligned_cols=24  Identities=21%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      --|++.|++|+|||+|++++...-
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCcchhHHHHHHHHh
Confidence            358899999999999999987543

>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=95.57  E-value=0.005  Score=42.53  Aligned_cols=23  Identities=22%  Similarity=0.392  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      |-|+|+|..||||||+.+.|...
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHC
Confidence            56889999999999999987643

>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=95.55  E-value=0.0035  Score=43.31  Aligned_cols=19  Identities=26%  Similarity=0.352  Sum_probs=17.0

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      |+|-|..||||||+++.|.
T Consensus         5 IviEG~dGsGKsT~~~~L~   23 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVV   23 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6777999999999998876

>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=95.48  E-value=0.0032  Score=44.22  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=18.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      .|+|-|+.||||||+++.|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467779999999999997764

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.36  E-value=0.0058  Score=41.04  Aligned_cols=25  Identities=20%  Similarity=0.349  Sum_probs=21.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      ..=|++.|++|+||||+.-.|....
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            3458999999999999998888654

>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=95.31  E-value=0.0075  Score=41.47  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +-|+|.|..||||||+.+.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6688999999999999987753

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.27  E-value=0.0054  Score=42.01  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDKF   34 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~~   34 (208)
                      -+.|.|++|+|||+|...+..+..
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHH
Confidence            467889999999999988875443

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.22  E-value=0.005  Score=42.64  Aligned_cols=20  Identities=20%  Similarity=0.385  Sum_probs=16.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      =|+|-|+.||||||++..|.
T Consensus         5 lI~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36677999999999887765

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.18  E-value=0.0027  Score=47.21  Aligned_cols=20  Identities=20%  Similarity=0.557  Sum_probs=18.4

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      .++++|+||+|||+|.+++.
T Consensus        30 ~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHH
Confidence            58999999999999999885

>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=95.18  E-value=0.0063  Score=44.70  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      ..+=|+|.|++|||||||.+.|.
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHH
Confidence            45889999999999999988775

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=95.12  E-value=0.0038  Score=46.42  Aligned_cols=27  Identities=19%  Similarity=0.399  Sum_probs=23.3

Q ss_pred             CCCceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            6 ALAKYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         6 ~~~~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .|..++|.|=|+.|+||||+++.|...
T Consensus         2 ~m~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           2 KMGVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             CEEEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             CccceEEEEECCCCCCHHHHHHHHHHH
Confidence            366789999999999999999988743

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.12  E-value=0.0069  Score=45.60  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.3

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +.-.+++.||||+|||+|...+..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHH
Confidence            345789999999999999998863

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.07  E-value=0.0073  Score=40.55  Aligned_cols=25  Identities=12%  Similarity=0.313  Sum_probs=21.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      ..=|+|.|++|+||||+.-.|....
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~G   39 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINKN   39 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHcC
Confidence            4558899999999999998888544

>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=95.00  E-value=0.012  Score=42.74  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=19.1

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +.+=|.|-|++|+|||||...|.
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHH
Confidence            45778899999999999987653

>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=94.99  E-value=0.0065  Score=42.49  Aligned_cols=23  Identities=13%  Similarity=0.223  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -+.|.|+||+|||+|...+....
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            46788999999999998887543

>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=94.93  E-value=0.0068  Score=45.68  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=20.0

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +.-+++++||+|||||-|.++|.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA   89 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLA   89 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHH
Confidence            34569999999999999999885

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=94.85  E-value=0.0077  Score=43.54  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      .-|.|+|..|+|||||...+...
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            45779999999999999887643

>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=94.82  E-value=0.053  Score=37.78  Aligned_cols=24  Identities=17%  Similarity=0.159  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcCc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      --+.|.|++|+|||+|..++..+.
T Consensus        38 ~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          38 AITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            356788999999999999887543

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.75  E-value=0.0087  Score=41.50  Aligned_cols=21  Identities=19%  Similarity=0.358  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      +.+.|++|+|||.|++++...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999988754

>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=94.73  E-value=0.0016  Score=44.40  Aligned_cols=18  Identities=22%  Similarity=0.577  Sum_probs=16.2

Q ss_pred             EEEcCCCCCHHHHHHHhh
Q 028507           13 VFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        13 ~vvG~~~~GKstli~~l~   30 (208)
                      +|+|+.|+|||||+.++.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            578999999999999875

>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=94.73  E-value=0.0084  Score=42.07  Aligned_cols=21  Identities=24%  Similarity=0.468  Sum_probs=17.9

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            466779999999999998874

>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=94.70  E-value=0.0049  Score=44.79  Aligned_cols=23  Identities=13%  Similarity=0.257  Sum_probs=16.4

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhh
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~   30 (208)
                      +..=|+|.|.+|+||||+.++|.
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHH
Confidence            34459999999999999998764

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.68  E-value=0.011  Score=39.46  Aligned_cols=25  Identities=16%  Similarity=0.337  Sum_probs=20.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcCc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      ..=|++.|++|+||||+.-.|....
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            4568999999999999998887554

>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=94.67  E-value=0.013  Score=43.11  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=18.7

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      -.++++||+|+|||.|...|.
T Consensus        53 ~~~lf~Gp~GvGKT~lak~la   73 (315)
T d1r6bx3          53 GSFLFAGPTGVGKTEVTVQLS   73 (315)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCcchhHHHHHHHH
Confidence            368999999999999998876

>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=94.66  E-value=0.0087  Score=42.11  Aligned_cols=23  Identities=17%  Similarity=0.182  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -++|.|+||+|||+|.-.+..+-
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            46788999999999998887544

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.47  E-value=0.011  Score=41.49  Aligned_cols=23  Identities=26%  Similarity=0.495  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      --++|.|+||+|||+|..++..+
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            45788899999999999888755

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=94.44  E-value=0.011  Score=43.78  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhc
Q 028507           10 YKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|.|=|+.|+||||+++.|..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC
T ss_pred             eEEEEECCcCCCHHHHHHHHHH
Confidence            6788999999999999998863

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.41  E-value=0.013  Score=43.48  Aligned_cols=24  Identities=13%  Similarity=0.126  Sum_probs=20.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhcC
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -++|.|=|+.|+||||+++.|...
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            478999999999999999988743

>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=94.30  E-value=0.0076  Score=43.89  Aligned_cols=19  Identities=26%  Similarity=0.471  Sum_probs=16.6

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      -+|+|+.|+|||+++.++.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            3789999999999999873

>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=94.26  E-value=0.014  Score=40.16  Aligned_cols=20  Identities=15%  Similarity=0.248  Sum_probs=17.9

Q ss_pred             EEEEcCCCCCHHHHHHHhhc
Q 028507           12 LVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~   31 (208)
                      +++.|++|+||||+...+..
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            88999999999999997664

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.17  E-value=0.013  Score=40.90  Aligned_cols=22  Identities=27%  Similarity=0.289  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcC
Q 028507           11 KLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~   32 (208)
                      -++|.|++|+|||+|...+..+
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4678899999999999888744

>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=94.17  E-value=0.013  Score=40.56  Aligned_cols=20  Identities=20%  Similarity=0.247  Sum_probs=17.5

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      =|+|=|..||||||+++.|.
T Consensus         5 ~I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            47888999999999998775

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.13  E-value=0.015  Score=42.90  Aligned_cols=21  Identities=19%  Similarity=0.365  Sum_probs=17.6

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      +++.|+||+|||.|.+.|.+.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            555799999999999988753

>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=93.93  E-value=0.017  Score=40.56  Aligned_cols=19  Identities=42%  Similarity=0.618  Sum_probs=17.0

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      +++.|++|+|||++.+.+.
T Consensus        37 ~Ll~Gp~G~GKtt~a~~~~   55 (239)
T d1njfa_          37 YLFSGTRGVGKTSIARLLA   55 (239)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            7888999999999998765

>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=93.89  E-value=0.016  Score=39.65  Aligned_cols=25  Identities=32%  Similarity=0.377  Sum_probs=21.0

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      +++-.+++.||+++|||.|..+|..
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             CCceEEEEECCCCccHHHHHHHHHH
Confidence            4556788999999999999988764

>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=93.78  E-value=0.019  Score=43.68  Aligned_cols=23  Identities=13%  Similarity=0.228  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHhhcCc
Q 028507           11 KLVFLGDQSVGKTSIITRFMYDK   33 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~~~   33 (208)
                      -|+|.|+.|+||||.++.++...
T Consensus       160 liLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCccHHHHHHhhhh
Confidence            48999999999999999988643

>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=93.65  E-value=0.017  Score=43.75  Aligned_cols=19  Identities=16%  Similarity=0.417  Sum_probs=16.5

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      -+|+|+.|+|||+++.++.
T Consensus        28 ~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3588999999999999874

>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=93.61  E-value=0.021  Score=40.90  Aligned_cols=20  Identities=10%  Similarity=0.348  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHhhc
Q 028507           12 LVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~   31 (208)
                      ++|.|+||+|||+|+..+..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            67889999999999887763

>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=93.47  E-value=0.021  Score=39.48  Aligned_cols=21  Identities=24%  Similarity=0.384  Sum_probs=17.4

Q ss_pred             eeEEEEcCCCCCHHHHHHHhh
Q 028507           10 YKLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~   30 (208)
                      --+.|.|++|+|||+|...+.
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            456788999999999987665

>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=93.39  E-value=0.024  Score=39.67  Aligned_cols=21  Identities=19%  Similarity=0.237  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCCHHHHHHHhhc
Q 028507           11 KLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~~   31 (208)
                      -|+|.|..||||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478889999999999998853

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.32  E-value=0.017  Score=41.84  Aligned_cols=15  Identities=33%  Similarity=0.521  Sum_probs=13.1

Q ss_pred             EEEEcCCCCCHHHHH
Q 028507           12 LVFLGDQSVGKTSII   26 (208)
Q Consensus        12 i~vvG~~~~GKstli   26 (208)
                      ++|+|++|+||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            688899999999764

>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=92.84  E-value=0.033  Score=40.30  Aligned_cols=23  Identities=13%  Similarity=0.247  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      =|++|+|++|+|||+|+..+..+
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHH
Confidence            47999999999999999887743

>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=92.73  E-value=0.025  Score=41.27  Aligned_cols=16  Identities=25%  Similarity=0.559  Sum_probs=13.6

Q ss_pred             eEEEEcCCCCCHHHHH
Q 028507           11 KLVFLGDQSVGKTSII   26 (208)
Q Consensus        11 ~i~vvG~~~~GKstli   26 (208)
                      .++|.|++|+||||.+
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            3788999999999764

>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=92.70  E-value=0.031  Score=39.77  Aligned_cols=20  Identities=10%  Similarity=0.175  Sum_probs=16.8

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      -.+|.|++|+|||+|+-.+.
T Consensus        31 ~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            35689999999999987765

>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=92.66  E-value=0.03  Score=42.76  Aligned_cols=23  Identities=22%  Similarity=0.479  Sum_probs=19.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-.++|+|.+|+|||+++..++.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHH
Confidence            35689999999999999877663

>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=92.30  E-value=0.062  Score=38.40  Aligned_cols=25  Identities=20%  Similarity=0.292  Sum_probs=21.2

Q ss_pred             CCceeEEEEcCCCCCHHHHHHHhhc
Q 028507            7 LAKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         7 ~~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .++--+.+.|++++|||+|++.+..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            4566788899999999999998774

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=92.15  E-value=0.056  Score=39.62  Aligned_cols=20  Identities=35%  Similarity=0.672  Sum_probs=17.6

Q ss_pred             eEEEEcCCCCCHHHHHHHhh
Q 028507           11 KLVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l~   30 (208)
                      .++++|++|+|||.+...|.
T Consensus        55 ~~lf~Gp~G~GKt~lak~la   74 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLA   74 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHH
Confidence            57888999999999998775

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=92.05  E-value=0.046  Score=40.91  Aligned_cols=19  Identities=26%  Similarity=0.468  Sum_probs=15.4

Q ss_pred             eEEEEcCCCCCHHHHHHHh
Q 028507           11 KLVFLGDQSVGKTSIITRF   29 (208)
Q Consensus        11 ~i~vvG~~~~GKstli~~l   29 (208)
                      -.+|.|++|+|||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4677899999999987553

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=91.43  E-value=0.44  Score=31.43  Aligned_cols=102  Identities=9%  Similarity=0.053  Sum_probs=57.1

Q ss_pred             CCceeEEEEcC-CCCCHHHHHHHhhcCcCCCCCCCccceeeEEEEEEECCEEEEEEEEEcCCchhh--------------
Q 028507            7 LAKYKLVFLGD-QSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERF--------------   71 (208)
Q Consensus         7 ~~~~~i~vvG~-~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------------   71 (208)
                      .+.+||+|+|. .++|-+ |+..|..+......                 ..+.++++|.+.....              
T Consensus        22 k~~~kV~I~GA~G~Ig~~-l~~~La~g~v~g~~-----------------~~i~L~L~di~~~~~~l~g~~mdl~d~a~~   83 (175)
T d7mdha1          22 KKLVNIAVSGAAGMISNH-LLFKLASGEVFGQD-----------------QPIALKLLGSERSFQALEGVAMELEDSLYP   83 (175)
T ss_dssp             CCCEEEEEETTTSHHHHH-HHHHHHHTTTTCTT-----------------CCEEEEEECCGGGHHHHHHHHHHHHTTTCT
T ss_pred             CCCcEEEEECCCcHHHHH-HHHHHHcCcccCCC-----------------ceEEEEEecCccccchhcchhhhhcccccc
Confidence            35689999996 667765 55566655432221                 1145777777652210              


Q ss_pred             -------hhchhhhccCCcEEEEEEeCCChh--h-HH-------HHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           72 -------RSLIPSYIRDSSVAVVVYDVASRQ--S-FL-------NTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        72 -------~~~~~~~~~~~d~~i~v~d~~~~~--s-~~-------~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                             .......+.++|++|++-......  + .+       -+..+.+.+.++..++..+++++|-.|.
T Consensus        84 ~~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd~  155 (175)
T d7mdha1          84 LLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCNT  155 (175)
T ss_dssp             TEEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             cccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHHH
Confidence                   001122367899999987654211  1 11       1334444555555556778888787763

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.45  E-value=0.073  Score=38.14  Aligned_cols=23  Identities=30%  Similarity=0.525  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCCHHHHHHHhhcC
Q 028507           10 YKLVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        10 ~~i~vvG~~~~GKstli~~l~~~   32 (208)
                      =|+.|+|++|+|||+|+..+..+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHH
Confidence            47999999999999998887644

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=90.15  E-value=0.096  Score=32.88  Aligned_cols=24  Identities=8%  Similarity=0.198  Sum_probs=17.6

Q ss_pred             CCceeE-EEEcCCCCCHHHHHHHhh
Q 028507            7 LAKYKL-VFLGDQSVGKTSIITRFM   30 (208)
Q Consensus         7 ~~~~~i-~vvG~~~~GKstli~~l~   30 (208)
                      ..++++ +|.++.|+|||+++-.+.
T Consensus         5 ~~~~~~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1           5 PQSFQVAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             CSSCEEEEEECCTTSCTTTHHHHHH
T ss_pred             ccCCCEEEEEeCCCCCHHHHHHHHH
Confidence            345566 557999999999876544

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.19  E-value=0.15  Score=31.54  Aligned_cols=24  Identities=8%  Similarity=0.249  Sum_probs=20.9

Q ss_pred             CceeEEEEcCCCCCHHHHHHHhhc
Q 028507            8 AKYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         8 ~~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      .-+.|.+.|.+|+||+|+.+.|..
T Consensus         5 qgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           5 QGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             cceEEEEeCCCCCCHHHHHHHHHH
Confidence            457889999999999999998864

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=89.05  E-value=0.086  Score=38.34  Aligned_cols=14  Identities=43%  Similarity=0.724  Sum_probs=12.8

Q ss_pred             EEEcCCCCCHHHHH
Q 028507           13 VFLGDQSVGKTSII   26 (208)
Q Consensus        13 ~vvG~~~~GKstli   26 (208)
                      +++|.+|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (313)
T d2olra1          18 VFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEECSTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            68899999999985

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=88.13  E-value=0.099  Score=38.15  Aligned_cols=15  Identities=40%  Similarity=0.649  Sum_probs=13.2

Q ss_pred             EEEEcCCCCCHHHHH
Q 028507           12 LVFLGDQSVGKTSII   26 (208)
Q Consensus        12 i~vvG~~~~GKstli   26 (208)
                      -+++|.+|+|||||-
T Consensus        17 alffGLSGTGKTTLs   31 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLS   31 (318)
T ss_dssp             EEEEECTTSCHHHHT
T ss_pred             EEEEccCCCCccccc
Confidence            478899999999985

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=88.11  E-value=0.16  Score=36.05  Aligned_cols=20  Identities=25%  Similarity=0.439  Sum_probs=16.7

Q ss_pred             EEEEcCCCCCHHHHHHHhhc
Q 028507           12 LVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|.|++|+|||+|.-.+..
T Consensus        57 tei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHH
Confidence            56789999999999876653

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=88.04  E-value=0.11  Score=37.89  Aligned_cols=15  Identities=40%  Similarity=0.647  Sum_probs=13.3

Q ss_pred             EEEEcCCCCCHHHHH
Q 028507           12 LVFLGDQSVGKTSII   26 (208)
Q Consensus        12 i~vvG~~~~GKstli   26 (208)
                      -+++|.+|+|||||-
T Consensus        17 alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEEECCTTSSHHHHH
T ss_pred             EEEEccCCCCcccce
Confidence            368999999999996

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=87.95  E-value=1.7  Score=29.24  Aligned_cols=76  Identities=16%  Similarity=0.104  Sum_probs=47.9

Q ss_pred             EEEEEEEcCCchhhhhchhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCcccCCCHHH
Q 028507           58 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVIIV-LVGNKTDLVEKRQVSIEE  136 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~D~~~~~~~~~~~  136 (208)
                      +.+.++|+++...  ......+..+|.++++...+ ..++..+.+....+.+   .++|++ +|.|+.+..+. ......
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~---~~~~~~giv~N~~~~~~~-~~~~~~  184 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKK---AGLAILGFVLNRYGRSDR-DIPPEA  184 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHH---TTCEEEEEEEEEETSCTT-CCCHHH
T ss_pred             CCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhh---hhhhhhhhhhcccccccc-hhhhHH
Confidence            4689999987543  23344567899999999875 4566666665555543   346654 78899986443 333444


Q ss_pred             HHHH
Q 028507          137 GEAK  140 (208)
Q Consensus       137 ~~~~  140 (208)
                      .+.+
T Consensus       185 ~~~~  188 (237)
T d1g3qa_         185 AEDV  188 (237)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            3333

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=87.81  E-value=1.1  Score=28.64  Aligned_cols=50  Identities=16%  Similarity=0.156  Sum_probs=29.1

Q ss_pred             hhccCCcEEEEEEeCCCh---hh-------HHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 028507           77 SYIRDSSVAVVVYDVASR---QS-------FLNTSKWIDEVRTERGSDVIIVLVGNKTDL  126 (208)
Q Consensus        77 ~~~~~~d~~i~v~d~~~~---~s-------~~~~~~~~~~i~~~~~~~~piivv~nK~D~  126 (208)
                      ..+.++|++|+.-.....   +.       ..-+..+...+.++..++..++++.|-.|.
T Consensus        76 ~~~~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsNPvDv  135 (154)
T d1y7ta1          76 VAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPANT  135 (154)
T ss_dssp             HHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             hhcccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecCcHHH
Confidence            347889999998765421   11       222344445555555455666777777763

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=87.48  E-value=0.18  Score=35.40  Aligned_cols=23  Identities=17%  Similarity=0.333  Sum_probs=19.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ..-|+|.|++|+||+.+.+.+..
T Consensus        23 ~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          23 ECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCcCHHHHHHHHHH
Confidence            34589999999999998887753

>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=87.12  E-value=0.19  Score=35.42  Aligned_cols=88  Identities=13%  Similarity=0.120  Sum_probs=51.8

Q ss_pred             EEEEEEEcCCchhhhh-chhhhccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCc-EEEEEeCCCCCcccCCCH
Q 028507           58 VRLQLWDTAGQERFRS-LIPSYIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVI-IVLVGNKTDLVEKRQVSI  134 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p-iivv~nK~D~~~~~~~~~  134 (208)
                      +.+.++|+|+...... ........+|.++++.+.+ ..++.........+..... .+.. .-++.|+.+....    .
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~~-~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~----~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGE-MMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANE----Y  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSS-HHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSCC----H
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccchh-hhHHHHHHHHHHHHHhhccccceeccceEEeeecCCCc----c
Confidence            4589999986432222 1222235678888888774 5667766666666655443 2233 3467798875432    3


Q ss_pred             HHHHHHHHhcCCeEEE
Q 028507          135 EEGEAKSRELNVMFIE  150 (208)
Q Consensus       135 ~~~~~~~~~~~~~~~~  150 (208)
                      +..+.++...+.+++.
T Consensus       191 ~~~~~~~~~~~~~~~~  206 (269)
T d1cp2a_         191 ELLDAFAKELGSQLIH  206 (269)
T ss_dssp             HHHHHHHHHHTCCEEE
T ss_pred             chhhhhHhhcCCeEEE
Confidence            4556667777775543

>d5mdha1 c.2.1.5 (A:1-154) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=86.69  E-value=0.69  Score=29.62  Aligned_cols=25  Identities=4%  Similarity=0.114  Sum_probs=17.4

Q ss_pred             CceeEEEEcC-CCCCHHHHHHHhhcCc
Q 028507            8 AKYKLVFLGD-QSVGKTSIITRFMYDK   33 (208)
Q Consensus         8 ~~~~i~vvG~-~~~GKstli~~l~~~~   33 (208)
                      ..+||+|+|. .++|.+... .|..+.
T Consensus         2 ~p~KV~IiGA~G~VG~~la~-~l~~~~   27 (154)
T d5mdha1           2 EPIRVLVTGAAGQIAYSLLY-SIGNGS   27 (154)
T ss_dssp             CCEEEEESSTTSHHHHTTHH-HHHTTT
T ss_pred             CceEEEEECCCCHHHHHHHH-HHHHHH
Confidence            3489999995 788987544 455444

>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=86.52  E-value=0.23  Score=34.58  Aligned_cols=19  Identities=21%  Similarity=0.382  Sum_probs=16.6

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      ++|.|+..+||||+++++.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            5778999999999999764

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=86.49  E-value=0.16  Score=36.48  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=19.3

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -=|+.|+|++|+|||+|+..+..
T Consensus        68 GQr~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEeecCCCCChHHHHHHHHH
Confidence            35789999999999999876653

>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=85.69  E-value=0.26  Score=34.01  Aligned_cols=19  Identities=16%  Similarity=0.415  Sum_probs=16.7

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      ++|.|+..+||||+++++.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            6788999999999999764

>d1mlda1 c.2.1.5 (A:1-144) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=84.48  E-value=3.3  Score=25.99  Aligned_cols=47  Identities=13%  Similarity=0.223  Sum_probs=26.6

Q ss_pred             hccCCcEEEEEEeCCC------hh----hHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 028507           78 YIRDSSVAVVVYDVAS------RQ----SFLNTSKWIDEVRTERGSDVIIVLVGNKTD  125 (208)
Q Consensus        78 ~~~~~d~~i~v~d~~~------~~----s~~~~~~~~~~i~~~~~~~~piivv~nK~D  125 (208)
                      .+.++|++|+..-...      .+    ...-++.+...+..+ .++..++++.|-.|
T Consensus        65 ~~~~aDivVitag~~~~~g~sR~~ll~~N~~i~~~i~~~i~~~-~p~~iiivvtNPvD  121 (144)
T d1mlda1          65 CLKGCDVVVIPAGVPRKPGMTRDDLFNTNATIVATLTAACAQH-CPDAMICIISNPVN  121 (144)
T ss_dssp             HHTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHH-CTTSEEEECSSCHH
T ss_pred             HhCCCCEEEECCCcCCCCCCCcchHHHHHHHHHHHHHHHHHhc-CCCeEEEEecCchh
Confidence            4678998888755421      11    112234444445444 45666777777777

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=83.23  E-value=0.24  Score=35.41  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=18.9

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      -=|+.|+|++|+|||+|+..+..
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~   89 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTIL   89 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHH
T ss_pred             CceEeeccCCCCChHHHHHHHHh
Confidence            44789999999999999876543

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=82.78  E-value=0.32  Score=32.31  Aligned_cols=21  Identities=19%  Similarity=0.340  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHhhcC
Q 028507           12 LVFLGDQSVGKTSIITRFMYD   32 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~~   32 (208)
                      |+|+|...+|||.+..++...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            688999999999999988743

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=81.31  E-value=0.48  Score=31.76  Aligned_cols=20  Identities=25%  Similarity=0.419  Sum_probs=15.8

Q ss_pred             eEEEEcCC-CCCHHHHHHHhh
Q 028507           11 KLVFLGDQ-SVGKTSIITRFM   30 (208)
Q Consensus        11 ~i~vvG~~-~~GKstli~~l~   30 (208)
                      |+.|.|-. ||||||+.--|.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            67888985 999999975543

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=81.25  E-value=0.49  Score=33.62  Aligned_cols=88  Identities=11%  Similarity=0.072  Sum_probs=46.6

Q ss_pred             EEEEEEEcCCchhhhhchhh-hccCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcE-EEEEeCCCCCcccCCCH
Q 028507           58 VRLQLWDTAGQERFRSLIPS-YIRDSSVAVVVYDVASRQSFLNTSKWIDEVRTERG-SDVII-VLVGNKTDLVEKRQVSI  134 (208)
Q Consensus        58 ~~~~i~D~~G~~~~~~~~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~pi-ivv~nK~D~~~~~~~~~  134 (208)
                      +.+.++|+|+.......... ....++.++++... +..++..+...+..+..... .+.++ .+|.|+.+....    .
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~----~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDRE----D  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTTH----H
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchhh----H
Confidence            45788998864322221111 12356666666554 45566666666666554332 33443 367788764222    2


Q ss_pred             HHHHHHHHhcCCeEEE
Q 028507          135 EEGEAKSRELNVMFIE  150 (208)
Q Consensus       135 ~~~~~~~~~~~~~~~~  150 (208)
                      +....+...++.+++.
T Consensus       194 ~~~~~~~~~~g~~vl~  209 (289)
T d2afhe1         194 ELIIALANKLGTQMIH  209 (289)
T ss_dssp             HHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHcCCeEEE
Confidence            3345556666665543

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=81.12  E-value=0.49  Score=33.27  Aligned_cols=21  Identities=33%  Similarity=0.588  Sum_probs=15.4

Q ss_pred             ceeEEEE-cCCCCCHHHHHHHh
Q 028507            9 KYKLVFL-GDQSVGKTSIITRF   29 (208)
Q Consensus         9 ~~~i~vv-G~~~~GKstli~~l   29 (208)
                      ..+|+++ |..|+||||+.-.|
T Consensus        19 ~~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          19 EHGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            3556665 99999999985443

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=81.05  E-value=0.49  Score=33.47  Aligned_cols=38  Identities=16%  Similarity=0.080  Sum_probs=23.4

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCC
Q 028507           83 SVAVVVYDVASRQSFLNTSKWIDEVRTERGSDVII-VLVGNKT  124 (208)
Q Consensus        83 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~nK~  124 (208)
                      +.+++|-..+ +.+.....+.+..+....   +|+ -+|+|+.
T Consensus       199 t~~~lVt~pe-~~~~~~~~r~~~~l~~~g---i~~~~vVvN~v  237 (296)
T d1ihua1         199 TRLVLVARLQ-KSTLQEVARTHLELAAIG---LKNQYLVINGV  237 (296)
T ss_dssp             EEEEEEEESC-HHHHHHHHHHHHHHHHHT---CCCEEEEEEEE
T ss_pred             ceeeEecCcc-hhHHHHHHHHHHHHHhcC---CCceEEEEcCC
Confidence            4566665543 556777777777766542   553 4666986

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=80.78  E-value=0.53  Score=33.35  Aligned_cols=19  Identities=26%  Similarity=0.447  Sum_probs=15.9

Q ss_pred             EEEEcCCCCCHHHHHHHhh
Q 028507           12 LVFLGDQSVGKTSIITRFM   30 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~   30 (208)
                      +.|.|++++|||+|.-.+.
T Consensus        63 ~e~~G~~~~GKT~l~l~~~   81 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAV   81 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHH
Confidence            5678999999999986665

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=80.35  E-value=0.52  Score=33.38  Aligned_cols=20  Identities=25%  Similarity=0.312  Sum_probs=16.7

Q ss_pred             EEEEcCCCCCHHHHHHHhhc
Q 028507           12 LVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus        12 i~vvG~~~~GKstli~~l~~   31 (208)
                      +.|.|++++|||+|.-.+..
T Consensus        60 tei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEecCCccchHHHHHHHHH
Confidence            46789999999999877664

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=80.07  E-value=0.51  Score=31.72  Aligned_cols=23  Identities=4%  Similarity=0.013  Sum_probs=20.0

Q ss_pred             ceeEEEEcCCCCCHHHHHHHhhc
Q 028507            9 KYKLVFLGDQSVGKTSIITRFMY   31 (208)
Q Consensus         9 ~~~i~vvG~~~~GKstli~~l~~   31 (208)
                      ...+++.|++|+|||++...+..
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999987764