Psyllid ID: psy1174

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180--
Protein Sequence
MNWKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKVQDMK
Secondary Structure (PSIPRED)
ccccccccccHHcccccccccccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccccEEccccccccccccccccccccccccccccccccccEEEEcEEEEEEccccHHHHHHHHHHHHHHHccEEEEEEcccccccccccccHHHHHHHHHHHccEEEEEccccHHccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHHcccEEEEEEEccccccHHHHHHHHHHHEEEccHHHHHcccEEEEEEEEEEEEEcccccccccccEccccccccccccccccccccEEEEEcEEEEEEccccHHHHHHHHHHHcccccEEEEEHccccccccccHHHHHHHHHHHHHHccHHHccHHHHHHHccEHHccc
Coil and Loop (DISEMBL)
mnwkgtlqsnwvsneissypgtighvahGKSTVVKAISGVQTVRFKNELERNITIKLGYanakiykcdnekcsrpacyisgrsnkddsfpclrssctgrfqlvrhvsfvdcpghDILMATMLNGAAVMDAALLLIGcdnaaktpeivdcpghDILMATMLNGAAVMDAALLLIGkfkvqdmk
Flexible Loop (DISEMBL)
MNWKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGvqtvrfknelernitiklgyanakiykcdnekcSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKVQDMK
Low Complexity Region (SEG)
MNWKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKVQDMK
Disordered region (IsUnstruct)
*********NWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKV****
Disordered Region (DISOPRED)
**WKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI******DDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKVQD**
Disordered Region (DISEMBL)
********SNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKVQDMK
Disordered Region (DISPRO)
**WKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKVQ***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNWKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMDAALLLIGKFKVQDMK
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	182	2.2.26 [Sep-21-2011]
Q24208	475	Eukaryotic translation in	yes	N/A	0.763	0.292	0.741	6e-56
Q54XD8	460	Eukaryotic translation in	yes	N/A	0.796	0.315	0.662	8e-51
Q09130	446	Eukaryotic translation in	yes	N/A	0.725	0.295	0.723	8e-50
P32481	527	Eukaryotic translation in	yes	N/A	0.686	0.237	0.728	5e-49
Q5ZMS3	472	Eukaryotic translation in	yes	N/A	0.763	0.294	0.690	7e-49
Q9Z0N2	472	Eukaryotic translation in	yes	N/A	0.763	0.294	0.683	2e-48
P41091	472	Eukaryotic translation in	yes	N/A	0.763	0.294	0.683	3e-48
Q9Z0N1	472	Eukaryotic translation in	yes	N/A	0.763	0.294	0.683	3e-48
P81795	472	Eukaryotic translation in	yes	N/A	0.763	0.294	0.683	3e-48
Q5R797	472	Eukaryotic translation in	yes	N/A	0.763	0.294	0.683	3e-48

>sp|Q24208|IF2G_DROME Eukaryotic translation initiation factor 2 subunit 3 OS=Drosophila melanogaster GN=Su(var)3-9 PE=2 SV=1

 Score =  216 bits (550), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 103/139 (74%), Positives = 115/139 (82%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 30  LSPEVISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 89

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDN KC RPA ++S  S+KDDS PC R +C+G F+LVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 90  CDNPKCPRPASFVSDASSKDDSLPCTRLNCSGNFRLVRHVSFVDCPGHDILMATMLNGAA 149

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 150 VMDAALLLIAGNESCPQPQ 168

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.
Drosophila melanogaster (taxid: 7227)

>sp|Q54XD8|IF2G_DICDI Eukaryotic translation initiation factor 2 subunit 3 OS=Dictyostelium discoideum GN=eif2s3 PE=2 SV=1

 Score =  199 bits (506), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 96/145 (66%), Positives = 110/145 (75%)

Query: 1   MNWKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYA 60
           +N    L  N +S + +   GTIGHVAHGKSTVVKAISGV TVRF +E +RNITIKLGYA
Sbjct: 19  VNELTPLTPNVISRQATINIGTIGHVAHGKSTVVKAISGVLTVRFTSEFKRNITIKLGYA 78

Query: 61  NAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMAT 120
           NAKIYKCDN +C RP CY S RSN +D+  C R  C GR  L+RHVSFVDCPGHD+LMAT
Sbjct: 79  NAKIYKCDNPQCERPGCYKSARSNTEDNPQCERPGCGGRMTLLRHVSFVDCPGHDVLMAT 138

Query: 121 MLNGAAVMDAALLLIGCDNAAKTPE 145
           MLNGAAVMDAALLLI  + +   P+
Sbjct: 139 MLNGAAVMDAALLLIAGNESCPQPQ 163

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Dictyostelium discoideum (taxid: 44689)

>sp|Q09130|IF2G_SCHPO Eukaryotic translation initiation factor 2 subunit gamma OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tif213 PE=2 SV=1

 Score =  196 bits (497), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 97/134 (72%), Positives = 105/134 (78%), Gaps = 2/134 (1%)

Query: 12  VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEK 71
           +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYKC NE+
Sbjct: 18  ISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCSNEE 77

Query: 72  CSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAA 131
           C RP CY S  SNK+D  PC    C     LVRHVSFVDCPGHDILMATMLNGAAVMDAA
Sbjct: 78  CPRPGCYRSYSSNKEDHPPC--EICNSPMNLVRHVSFVDCPGHDILMATMLNGAAVMDAA 135

Query: 132 LLLIGCDNAAKTPE 145
           LLLI  + +   P+
Sbjct: 136 LLLIAGNESCPQPQ 149

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

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

>sp|P32481|IF2G_YEAST Eukaryotic translation initiation factor 2 subunit gamma OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=GCD11 PE=1 SV=1

 Score =  193 bits (491), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 91/125 (72%), Positives = 103/125 (82%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHVAHGKSTVV+AISGVQTVRFK+ELERNITIKLGYANAKIYKC    C  P CY S
Sbjct: 104 GTIGHVAHGKSTVVRAISGVQTVRFKDELERNITIKLGYANAKIYKCQEPTCPEPDCYRS 163

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
            +S+K+ S  C R  C GR++LVRHVSFVDCPGHDILM+TML+GAAVMDAALLLI  + +
Sbjct: 164 FKSDKEISPKCQRPGCPGRYKLVRHVSFVDCPGHDILMSTMLSGAAVMDAALLLIAGNES 223

Query: 141 AKTPE 145
              P+
Sbjct: 224 CPQPQ 228

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q5ZMS3|IF2G_CHICK Eukaryotic translation initiation factor 2 subunit 3 OS=Gallus gallus GN=EIF2S3 PE=1 SV=1

 Score =  192 bits (489), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 96/139 (69%), Positives = 105/139 (75%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK
Sbjct: 31  LSPEVISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYK 90

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            D+  CSRP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 91  LDDPSCSRPECYRSCGSSTPDEFPTDIPGTKGNFKLVRHVSFVDCPGHDILMATMLNGAA 150

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 151 VMDAALLLIAGNESCPQPQ 169

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Gallus gallus (taxid: 9031)

>sp|Q9Z0N2|IF2H_MOUSE Eukaryotic translation initiation factor 2 subunit 3, Y-linked OS=Mus musculus GN=Eif2s3y PE=2 SV=2

 Score =  191 bits (485), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 95/139 (68%), Positives = 104/139 (74%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK
Sbjct: 31  LSREIISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYK 90

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            D+  C RP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 91  LDDSSCPRPECYRSCGSSTPDEFPSDIPGTKGNFRLVRHVSFVDCPGHDILMATMLNGAA 150

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 151 VMDAALLLIAGNESCPQPQ 169

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Mus musculus (taxid: 10090)

>sp|P41091|IF2G_HUMAN Eukaryotic translation initiation factor 2 subunit 3 OS=Homo sapiens GN=EIF2S3 PE=1 SV=3

 Score =  191 bits (484), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 95/139 (68%), Positives = 104/139 (74%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK
Sbjct: 31  LSHEVISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYK 90

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            D+  C RP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 91  LDDPSCPRPECYRSCGSSTPDEFPTDIPGTKGNFKLVRHVSFVDCPGHDILMATMLNGAA 150

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 151 VMDAALLLIAGNESCPQPQ 169

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Homo sapiens (taxid: 9606)

>sp|Q9Z0N1|IF2G_MOUSE Eukaryotic translation initiation factor 2 subunit 3, X-linked OS=Mus musculus GN=Eif2s3x PE=1 SV=2

 Score =  191 bits (484), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 95/139 (68%), Positives = 104/139 (74%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK
Sbjct: 31  LSHEVISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYK 90

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            D+  C RP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 91  LDDPSCPRPECYRSCGSSTPDEFPTDIPGTKGNFKLVRHVSFVDCPGHDILMATMLNGAA 150

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 151 VMDAALLLIAGNESCPQPQ 169

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Mus musculus (taxid: 10090)

>sp|P81795|IF2G_RAT Eukaryotic translation initiation factor 2 subunit 3 OS=Rattus norvegicus GN=Eif2s3 PE=1 SV=2

 Score =  191 bits (484), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 95/139 (68%), Positives = 104/139 (74%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK
Sbjct: 31  LSHEVISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYK 90

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            D+  C RP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 91  LDDPSCPRPECYRSCGSSTPDEFPTDIPGTKGNFKLVRHVSFVDCPGHDILMATMLNGAA 150

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 151 VMDAALLLIAGNESCPQPQ 169

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Rattus norvegicus (taxid: 10116)

>sp|Q5R797|IF2G_PONAB Eukaryotic translation initiation factor 2 subunit 3 OS=Pongo abelii GN=EIF2S3 PE=2 SV=1

 Score =  191 bits (484), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 95/139 (68%), Positives = 104/139 (74%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK
Sbjct: 31  LSHEVISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYK 90

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            D+  C RP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 91  LDDPSCPRPECYRSCGSSTPDEFPTDIPGTKGNFKLVRHVSFVDCPGHDILMATMLNGAA 150

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 151 VMDAALLLIAGNESCPQPQ 169

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Pongo abelii (taxid: 9601)

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	182
51965704	469	translation initiation factor 2 gamma su	0.763	0.296	0.798	2e-60
51965700	458	translation initiation factor 2 gamma su	0.763	0.303	0.791	4e-60
156537626	473	PREDICTED: eukaryotic translation initia	0.763	0.293	0.798	6e-60
283837917	473	suppressor of variegation 3-9 isoform 2	0.763	0.293	0.791	1e-59
51965692	473	translation initiation factor 2 gamma su	0.763	0.293	0.791	2e-59
9409732	473	eukaryotic translation initiation factor	0.796	0.306	0.758	4e-59
389608981	476	suppressor of variegation 3-3 [Papilio x	0.763	0.292	0.784	3e-58
224492639	328	translation initiation factor 2, gamma s	0.763	0.423	0.776	5e-58
51965696	473	translation initiation factor 2 gamma su	0.763	0.293	0.762	5e-58
332376559	471	unknown [Dendroctonus ponderosae]	0.763	0.295	0.762	6e-58

>gi|51965704|emb|CAG29674.1| translation initiation factor 2 gamma subunit [Cercopis vulnerata]

 Score =  236 bits (603), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 111/139 (79%), Positives = 121/139 (87%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKA+SGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 31  LSPEVISRQATINIGTIGHVAHGKSTVVKAVSGVQTVRFKNELERNITIKLGYANAKIYK 90

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDNEKC RPACYISG S+KDDSFPCLR +C+GRFQLVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 91  CDNEKCPRPACYISGGSSKDDSFPCLRPACSGRFQLVRHVSFVDCPGHDILMATMLNGAA 150

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 151 VMDAALLLIAGNESCPQPQ 169

Source: Cercopis vulnerata

Species: Cercopis vulnerata

Genus: Cercopis

Family: Cercopidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|51965700|emb|CAG29672.1| translation initiation factor 2 gamma subunit [Locusta migratoria]

 Score =  236 bits (601), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 110/139 (79%), Positives = 121/139 (87%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 19  LSPEVISKQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 78

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDNE+C RPACYISG S KDDSFPCLR++C+GRFQ+VRHVSFVDCPGHDILMATMLNGAA
Sbjct: 79  CDNERCPRPACYISGGSGKDDSFPCLRAACSGRFQVVRHVSFVDCPGHDILMATMLNGAA 138

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 139 VMDAALLLIAGNESCPQPQ 157

Source: Locusta migratoria

Species: Locusta migratoria

Genus: Locusta

Family: Acrididae

Order: Orthoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156537626|ref|XP_001607783.1| PREDICTED: eukaryotic translation initiation factor 2 subunit 3, Y-linked-like [Nasonia vitripennis]

 Score =  235 bits (599), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 111/139 (79%), Positives = 120/139 (86%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKST+VKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 32  LSREVISRQATINIGTIGHVAHGKSTIVKAISGVQTVRFKNELERNITIKLGYANAKIYK 91

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDNEKC RPACYISG S+KDDSFPCLR  C+GRFQLVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 92  CDNEKCPRPACYISGGSSKDDSFPCLRPICSGRFQLVRHVSFVDCPGHDILMATMLNGAA 151

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 152 VMDAALLLIAGNESCPQPQ 170

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|283837917|ref|NP_001164640.1| suppressor of variegation 3-9 isoform 2 [Apis mellifera] gi|350412047|ref|XP_003489527.1| PREDICTED: eukaryotic translation initiation factor 2 subunit 3, Y-linked-like [Bombus impatiens]

 Score =  234 bits (596), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 110/139 (79%), Positives = 119/139 (85%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKST+VKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 32  LSREVISRQATINIGTIGHVAHGKSTIVKAISGVQTVRFKNELERNITIKLGYANAKIYK 91

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDNEKC RP CYISG S+KDDSFPCLR  C+GRFQLVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 92  CDNEKCPRPGCYISGGSSKDDSFPCLRPVCSGRFQLVRHVSFVDCPGHDILMATMLNGAA 151

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 152 VMDAALLLIAGNESCPQPQ 170

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|51965692|emb|CAG29668.1| translation initiation factor 2 gamma subunit [Lepismachilis sp. VK-2004]

 Score =  234 bits (596), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 110/139 (79%), Positives = 119/139 (85%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 33  LSPEVISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 92

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDNEKC RP CYISG S+KDDSFPC R +C+GRFQLVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 93  CDNEKCPRPTCYISGGSSKDDSFPCFRPNCSGRFQLVRHVSFVDCPGHDILMATMLNGAA 152

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 153 VMDAALLLIAGNESCPQPQ 171

Source: Lepismachilis sp. VK-2004

Species: Lepismachilis sp. VK-2004

Genus: Lepismachilis

Family: Machilidae

Order: Archaeognatha

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|9409732|emb|CAB98197.1| eukaryotic translation initiation factor 2 gamma [Clytus arietis]

 Score =  232 bits (592), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 110/145 (75%), Positives = 121/145 (83%)

Query: 1   MNWKGTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYA 60
           +N    L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYA
Sbjct: 26  VNKLTALSPEVISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYA 85

Query: 61  NAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMAT 120
           NAKIYKCDN KC RP CYISG S+KDD+FPCLR +C+GRFQLVRHVSFVDCPGHDILMAT
Sbjct: 86  NAKIYKCDNAKCPRPGCYISGSSSKDDNFPCLRPACSGRFQLVRHVSFVDCPGHDILMAT 145

Query: 121 MLNGAAVMDAALLLIGCDNAAKTPE 145
           MLNGAAVMDAALLLI  + +   P+
Sbjct: 146 MLNGAAVMDAALLLIAGNESCPQPQ 170

Source: Clytus arietis

Species: Clytus arietis

Genus: Clytus

Family: Cerambycidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389608981|dbj|BAM18102.1| suppressor of variegation 3-3 [Papilio xuthus]

 Score =  229 bits (585), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 109/139 (78%), Positives = 118/139 (84%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 29  LSPEVISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 88

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDN KC RP  YISG S+KDD+FPCLR +CTGRFQLVRHVSFVDCPGHDILMATMLNGAA
Sbjct: 89  CDNPKCPRPTSYISGGSSKDDNFPCLRPACTGRFQLVRHVSFVDCPGHDILMATMLNGAA 148

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 149 VMDAALLLIAGNESCPQPQ 167

Source: Papilio xuthus

Species: Papilio xuthus

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|224492639|emb|CAX17290.1| translation initiation factor 2, gamma subunit [Medauroidea extradentata]

 Score =  229 bits (583), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 108/139 (77%), Positives = 120/139 (86%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 27  LSPEVISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 86

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDN+KC RPACYIS  S+KDDSFPCLR +C+GRF+LVRHVSF+DCPGHDILMATMLNGAA
Sbjct: 87  CDNDKCPRPACYISEGSSKDDSFPCLRPNCSGRFRLVRHVSFMDCPGHDILMATMLNGAA 146

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 147 VMDAALLLIAGNESCPQPQ 165

Source: Medauroidea extradentata

Species: Medauroidea extradentata

Genus: Medauroidea

Family: Phasmatidae

Order: Phasmatodea

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|51965696|emb|CAG29670.1| translation initiation factor 2 gamma subunit [Forficula auricularia]

 Score =  229 bits (583), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 106/139 (76%), Positives = 118/139 (84%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 30  LSPEVISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 89

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDNEKC RP CY SG S+KDDSFPC R +C+GRF+++RHVSFVDCPGHDILMATMLNGAA
Sbjct: 90  CDNEKCPRPTCYFSGGSSKDDSFPCFRPNCSGRFKIIRHVSFVDCPGHDILMATMLNGAA 149

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 150 VMDAALLLIAGNESCPQPQ 168

Source: Forficula auricularia

Species: Forficula auricularia

Genus: Forficula

Family: Forficulidae

Order: Dermaptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332376559|gb|AEE63419.1| unknown [Dendroctonus ponderosae]

 Score =  228 bits (582), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 106/139 (76%), Positives = 119/139 (85%)

Query: 7   LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
           L    +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK
Sbjct: 32  LSPEVISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 91

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
           CDN KC+RP  +ISG S+KDDSFPC+R +C+GRFQL+RHVSFVDCPGHDILMATMLNGAA
Sbjct: 92  CDNPKCTRPTSFISGSSSKDDSFPCIRPACSGRFQLIRHVSFVDCPGHDILMATMLNGAA 151

Query: 127 VMDAALLLIGCDNAAKTPE 145
           VMDAALLLI  + +   P+
Sbjct: 152 VMDAALLLIAGNESCPQPQ 170

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

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	182
FB|FBgn0263740	475	eIF-2gamma "Eukaryotic initiat	0.736	0.282	0.761	1.9e-51
ASPGD|ASPL0000074535	514	AN4470 [Emericella nidulans (t	0.686	0.243	0.752	8.8e-47
DICTYBASE|DDB_G0278967	460	eif2s3 "translation initiation	0.763	0.302	0.683	1.1e-46
POMBASE|SPBC17G9.09	446	tif213 "translation initiation	0.725	0.295	0.723	1.8e-46
CGD|CAL0000138	534	GCD11 [Candida albicans (taxid	0.686	0.234	0.728	1.6e-45
WB|WBGene00021466	469	Y39G10AR.8 [Caenorhabditis ele	0.736	0.285	0.671	1.6e-45
UNIPROTKB|G4MTX0	513	MGG_01592 "Eukaryotic translat	0.686	0.243	0.72	5.6e-45
UNIPROTKB|G3N0A9	473	EIF2S3Y "Uncharacterized prote	0.736	0.283	0.708	9.1e-45
SGD|S000000827	527	GCD11 "Gamma subunit of the tr	0.763	0.263	0.661	9.1e-45
UNIPROTKB|F1NPF0	472	EIF2S3 "Eukaryotic translation	0.736	0.283	0.708	1.2e-44

FB|FBgn0263740 eIF-2gamma "Eukaryotic initiation factor 2gamma" [Drosophila melanogaster (taxid:7227)]

 Score = 534 (193.0 bits), Expect = 1.9e-51, P = 1.9e-51
 Identities = 102/134 (76%), Positives = 114/134 (85%)

Query:    12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEK 71
             +S + +   GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDN K
Sbjct:    35 ISRQATINIGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNPK 94

Query:    72 CSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAA 131
             C RPA ++S  S+KDDS PC R +C+G F+LVRHVSFVDCPGHDILMATMLNGAAVMDAA
Sbjct:    95 CPRPASFVSDASSKDDSLPCTRLNCSGNFRLVRHVSFVDCPGHDILMATMLNGAAVMDAA 154

Query:   132 LLLIGCDNAAKTPE 145
             LLLI  + +   P+
Sbjct:   155 LLLIAGNESCPQPQ 168

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

ASPGD|ASPL0000074535 AN4470 [Emericella nidulans (taxid:162425)]

 Score = 490 (177.5 bits), Expect = 8.8e-47, P = 8.8e-47
 Identities = 94/125 (75%), Positives = 104/125 (83%)

Query:    21 GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
             GTIGHVAHGKSTVVKAIS VQTVRFKNELERNITIKLGYANAKIYKCDN  C RP CY S
Sbjct:    90 GTIGHVAHGKSTVVKAISEVQTVRFKNELERNITIKLGYANAKIYKCDNPACPRPTCYKS 149

Query:    81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
              +S K+   PC R  C+GR++L+RHVSFVDCPGHDILM+TML+GAAVMDAALLLI  +  
Sbjct:   150 YKSEKEIDPPCERDGCSGRYRLLRHVSFVDCPGHDILMSTMLSGAAVMDAALLLIAGNET 209

Query:   141 AKTPE 145
                P+
Sbjct:   210 CPQPQ 214

GO:0045903 "positive regulation of translational fidelity" evidence=IEA

GO:0043614 "multi-eIF complex" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005850 "eukaryotic translation initiation factor 2 complex" evidence=IEA

GO:0000049 "tRNA binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

DICTYBASE|DDB_G0278967 eif2s3 "translation initiation factor 2 gamma" [Dictyostelium discoideum (taxid:44689)]

 Score = 489 (177.2 bits), Expect = 1.1e-46, P = 1.1e-46
 Identities = 95/139 (68%), Positives = 108/139 (77%)

Query:     7 LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
             L  N +S + +   GTIGHVAHGKSTVVKAISGV TVRF +E +RNITIKLGYANAKIYK
Sbjct:    25 LTPNVISRQATINIGTIGHVAHGKSTVVKAISGVLTVRFTSEFKRNITIKLGYANAKIYK 84

Query:    67 CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
             CDN +C RP CY S RSN +D+  C R  C GR  L+RHVSFVDCPGHD+LMATMLNGAA
Sbjct:    85 CDNPQCERPGCYKSARSNTEDNPQCERPGCGGRMTLLRHVSFVDCPGHDVLMATMLNGAA 144

Query:   127 VMDAALLLIGCDNAAKTPE 145
             VMDAALLLI  + +   P+
Sbjct:   145 VMDAALLLIAGNESCPQPQ 163

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0006413 "translational initiation" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

POMBASE|SPBC17G9.09 tif213 "translation initiation factor eIF2 gamma subunit (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 487 (176.5 bits), Expect = 1.8e-46, P = 1.8e-46
 Identities = 97/134 (72%), Positives = 105/134 (78%)

Query:    12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEK 71
             +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYKC NE+
Sbjct:    18 ISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCSNEE 77

Query:    72 CSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAA 131
             C RP CY S  SNK+D  PC    C     LVRHVSFVDCPGHDILMATMLNGAAVMDAA
Sbjct:    78 CPRPGCYRSYSSNKEDHPPC--EICNSPMNLVRHVSFVDCPGHDILMATMLNGAAVMDAA 135

Query:   132 LLLIGCDNAAKTPE 145
             LLLI  + +   P+
Sbjct:   136 LLLIAGNESCPQPQ 149

GO:0002183 "cytoplasmic translational initiation" evidence=NAS

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

CGD|CAL0000138 GCD11 [Candida albicans (taxid:5476)]

 Score = 478 (173.3 bits), Expect = 1.6e-45, P = 1.6e-45
 Identities = 91/125 (72%), Positives = 106/125 (84%)

Query:    21 GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
             GTIGHVAHGKSTVV+AISGVQTVRFK+ELERNITIKLGYANAKIYKCDN +C  P CY S
Sbjct:   110 GTIGHVAHGKSTVVRAISGVQTVRFKDELERNITIKLGYANAKIYKCDNPECPEPDCYRS 169

Query:    81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
              +S+K+    C R+ C GR++L+RHVSFVDCPGHDILM+TML+GAAVMDAALLLI  + +
Sbjct:   170 FKSDKEIRPKCQRAGCDGRYKLLRHVSFVDCPGHDILMSTMLSGAAVMDAALLLIAGNES 229

Query:   141 AKTPE 145
                P+
Sbjct:   230 CPQPQ 234

GO:0043614 "multi-eIF complex" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005850 "eukaryotic translation initiation factor 2 complex" evidence=IEA

GO:0045903 "positive regulation of translational fidelity" evidence=IEA

GO:0000049 "tRNA binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

WB|WBGene00021466 Y39G10AR.8 [Caenorhabditis elegans (taxid:6239)]

 Score = 478 (173.3 bits), Expect = 1.6e-45, P = 1.6e-45
 Identities = 90/134 (67%), Positives = 103/134 (76%)

Query:    12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEK 71
             +S + +   GTIGHVAHGKST+VKA SGV TV+FK ELERNITIKLGYANAKIY+C N++
Sbjct:    35 ISRQATINIGTIGHVAHGKSTLVKAFSGVHTVKFKRELERNITIKLGYANAKIYRCSNQE 94

Query:    72 CSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAA 131
             C RP CY S  S+  D FPC R+ C G F  VRHVSFVDCPGHDILMATMLNGAAVMDAA
Sbjct:    95 CPRPGCYRSAGSSTPDRFPCERAGCGGEFTCVRHVSFVDCPGHDILMATMLNGAAVMDAA 154

Query:   132 LLLIGCDNAAKTPE 145
              LL+  +     P+
Sbjct:   155 FLLVAGNEPCPQPQ 168

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040018 "positive regulation of multicellular organism growth" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

UNIPROTKB|G4MTX0 MGG_01592 "Eukaryotic translation initiation factor 2 subunit gamma" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 90/125 (72%), Positives = 105/125 (84%)

Query:    21 GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
             GTIGHVAHGKSTVVKAISGVQTVRFKNEL RNITIKLGYANAKIY+C+N KC RP  + S
Sbjct:    89 GTIGHVAHGKSTVVKAISGVQTVRFKNELIRNITIKLGYANAKIYRCNNPKCPRPTAFRS 148

Query:    81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
              +S+K+   PC R  C G+++L+RHVSFVDCPGHDILM+TML+GAAVMDAALLLI  + +
Sbjct:   149 YKSDKEVDPPCEREGCEGKYELLRHVSFVDCPGHDILMSTMLSGAAVMDAALLLIAGNES 208

Query:   141 AKTPE 145
                P+
Sbjct:   209 CPQPQ 213

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|G3N0A9 EIF2S3Y "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 95/134 (70%), Positives = 104/134 (77%)

Query:    12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEK 71
             +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK D+E 
Sbjct:    37 ISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKLDDES 96

Query:    72 CSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAA 131
             C RP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAAVMDAA
Sbjct:    97 CPRPECYRSCGSSTPDEFPTDIPGTKGNFRLVRHVSFVDCPGHDILMATMLNGAAVMDAA 156

Query:   132 LLLIGCDNAAKTPE 145
             LLLI  + +   P+
Sbjct:   157 LLLIAGNESCPQPQ 170

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

SGD|S000000827 GCD11 "Gamma subunit of the translation initiation factor eIF2" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 92/139 (66%), Positives = 109/139 (78%)

Query:     7 LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK 66
             L +  ++ + +   GTIGHVAHGKSTVV+AISGVQTVRFK+ELERNITIKLGYANAKIYK
Sbjct:    90 LSAEIINRQATINIGTIGHVAHGKSTVVRAISGVQTVRFKDELERNITIKLGYANAKIYK 149

Query:    67 CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
             C    C  P CY S +S+K+ S  C R  C GR++LVRHVSFVDCPGHDILM+TML+GAA
Sbjct:   150 CQEPTCPEPDCYRSFKSDKEISPKCQRPGCPGRYKLVRHVSFVDCPGHDILMSTMLSGAA 209

Query:   127 VMDAALLLIGCDNAAKTPE 145
             VMDAALLLI  + +   P+
Sbjct:   210 VMDAALLLIAGNESCPQPQ 228

GO:0005850 "eukaryotic translation initiation factor 2 complex" evidence=ISS;IMP

GO:0045903 "positive regulation of translational fidelity" evidence=IMP

GO:0003743 "translation initiation factor activity" evidence=IEA;TAS

GO:0005840 "ribosome" evidence=TAS

GO:0006413 "translational initiation" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0043614 "multi-eIF complex" evidence=IDA

GO:0000049 "tRNA binding" evidence=IMP

UNIPROTKB|F1NPF0 EIF2S3 "Eukaryotic translation initiation factor 2 subunit 3" [Gallus gallus (taxid:9031)]

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 95/134 (70%), Positives = 104/134 (77%)

Query:    12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEK 71
             +S + +   GTIGHVAHGKSTVVKAISGV TVRFKNELERNITIKLGYANAKIYK D+  
Sbjct:    36 ISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKLDDPS 95

Query:    72 CSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAA 131
             CSRP CY S  S+  D FP       G F+LVRHVSFVDCPGHDILMATMLNGAAVMDAA
Sbjct:    96 CSRPECYRSCGSSTPDEFPTDIPGTKGNFKLVRHVSFVDCPGHDILMATMLNGAAVMDAA 155

Query:   132 LLLIGCDNAAKTPE 145
             LLLI  + +   P+
Sbjct:   156 LLLIAGNESCPQPQ 169

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP 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)
Q54XD8	IF2G_DICDI	No assigned EC number	0.6620	0.7967	0.3152	yes	N/A
Q2KHU8	IF2G_BOVIN	No assigned EC number	0.6834	0.7637	0.2944	yes	N/A
Q9Z0N1	IF2G_MOUSE	No assigned EC number	0.6834	0.7637	0.2944	yes	N/A
Q9Z0N2	IF2H_MOUSE	No assigned EC number	0.6834	0.7637	0.2944	yes	N/A
O96719	IF2G_ENCCU	No assigned EC number	0.6640	0.6868	0.2847	yes	N/A
Q5ZMS3	IF2G_CHICK	No assigned EC number	0.6906	0.7637	0.2944	yes	N/A
Q09130	IF2G_SCHPO	No assigned EC number	0.7238	0.7252	0.2959	yes	N/A
P32481	IF2G_YEAST	No assigned EC number	0.728	0.6868	0.2371	yes	N/A
Q2VIR3	IF2GL_HUMAN	No assigned EC number	0.6762	0.7637	0.2944	yes	N/A
Q24208	IF2G_DROME	No assigned EC number	0.7410	0.7637	0.2926	yes	N/A
P81795	IF2G_RAT	No assigned EC number	0.6834	0.7637	0.2944	yes	N/A
Q5R797	IF2G_PONAB	No assigned EC number	0.6834	0.7637	0.2944	yes	N/A
P41091	IF2G_HUMAN	No assigned EC number	0.6834	0.7637	0.2944	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	182
PTZ00327	460	PTZ00327, PTZ00327, eukaryotic translation initiat	4e-75
cd01888	197	cd01888, eIF2_gamma, Gamma subunit of initiation f	1e-68
COG5257	415	COG5257, GCD11, Translation initiation factor 2, g	2e-55
PRK04000	411	PRK04000, PRK04000, translation initiation factor	2e-43
TIGR03680	406	TIGR03680, eif2g_arch, translation initiation fact	6e-40
cd04171	170	cd04171, SelB, SelB, the dedicated elongation fact	3e-20
pfam00009	184	pfam00009, GTP_EFTU, Elongation factor Tu GTP bind	5e-20
PRK10512	614	PRK10512, PRK10512, selenocysteinyl-tRNA-specific	2e-14
COG0050	394	COG0050, TufB, GTPases - translation elongation fa	3e-14
COG3276	447	COG3276, SelB, Selenocysteine-specific translation	6e-14
cd00881	183	cd00881, GTP_translation_factor, GTP translation f	9e-14
TIGR00475	581	TIGR00475, selB, selenocysteine-specific elongatio	1e-13
cd01889	192	cd01889, SelB_euk, SelB, the dedicated elongation	1e-11
PRK00049	396	PRK00049, PRK00049, elongation factor Tu; Reviewed	5e-11
PRK12735	396	PRK12735, PRK12735, elongation factor Tu; Reviewed	6e-11
PRK12736	394	PRK12736, PRK12736, elongation factor Tu; Reviewed	4e-10
cd01884	195	cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-b	2e-09
TIGR00485	394	TIGR00485, EF-Tu, translation elongation factor TU	2e-09
CHL00071	409	CHL00071, tufA, elongation factor Tu	6e-09
PLN03127	447	PLN03127, PLN03127, Elongation factor Tu; Provisio	1e-08
pfam00009	184	pfam00009, GTP_EFTU, Elongation factor Tu GTP bind	4e-07
PLN03126	478	PLN03126, PLN03126, Elongation factor Tu; Provisio	5e-07
COG5256	428	COG5256, TEF1, Translation elongation factor EF-1a	2e-05
TIGR00483	426	TIGR00483, EF-1_alpha, translation elongation fact	3e-05
PRK12317	425	PRK12317, PRK12317, elongation factor 1-alpha; Rev	1e-04
cd04171	170	cd04171, SelB, SelB, the dedicated elongation fact	4e-04
COG5258	527	COG5258, GTPBP1, GTPase [General function predicti	6e-04
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	8e-04
cd01889	192	cd01889, SelB_euk, SelB, the dedicated elongation	9e-04
COG0050	394	COG0050, TufB, GTPases - translation elongation fa	0.001
TIGR00485	394	TIGR00485, EF-Tu, translation elongation factor TU	0.001
TIGR00483	426	TIGR00483, EF-1_alpha, translation elongation fact	0.001
cd00881	183	cd00881, GTP_translation_factor, GTP translation f	0.002
PRK00049	396	PRK00049, PRK00049, elongation factor Tu; Reviewed	0.002
PRK12736	394	PRK12736, PRK12736, elongation factor Tu; Reviewed	0.002
CHL00071	409	CHL00071, tufA, elongation factor Tu	0.002
COG5256	428	COG5256, TEF1, Translation elongation factor EF-1a	0.002
PRK12735	396	PRK12735, PRK12735, elongation factor Tu; Reviewed	0.003
PLN03126	478	PLN03126, PLN03126, Elongation factor Tu; Provisio	0.003

>gnl|CDD|240362 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2 gamma subunit; Provisional

 Score =  231 bits (592), Expect = 4e-75
 Identities = 92/130 (70%), Positives = 97/130 (74%), Gaps = 12/130 (9%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHVAHGKSTVVKA+SGV+TVRFK E  RNITIKLGYANAKIYKC   KC RP CY S
Sbjct: 38  GTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKC--PKCPRPTCYQS 95

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S+K D+ PC    C  +  L RHVSFVDCPGHDILMATMLNGAAVMDAALLLI    A
Sbjct: 96  YGSSKPDNPPC--PGCGHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLI----A 149

Query: 141 AKTPEIVDCP 150
           A       CP
Sbjct: 150 ANES----CP 155

Length = 460

>gnl|CDD|206675 cd01888, eIF2_gamma, Gamma subunit of initiation factor 2 (eIF2 gamma)

 Score =  207 bits (528), Expect = 1e-68
 Identities = 79/115 (68%), Positives = 87/115 (75%), Gaps = 10/115 (8%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHVAHGK+T+VKA+SGV TVR K EL+RNITIKLGYANAKIYKC N  C RP     
Sbjct: 4   GTIGHVAHGKTTLVKALSGVWTVRHKEELKRNITIKLGYANAKIYKCPNCGCPRP----- 58

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
                 D+  C    C G  +LVRHVSFVDCPGH+ILMATML+GAAVMD ALLLI
Sbjct: 59  -----YDTPECECPGCGGETKLVRHVSFVDCPGHEILMATMLSGAAVMDGALLLI 108

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 selenocysteine-specific elongation factor from eubacteria. The translational factor components of the ternary complex, IF2 in eubacteria and eIF2 in eukaryotes are not the same protein (despite their unfortunately similar names). Both factors are GTPases; however, eubacterial IF-2 is a single polypeptide, while eIF2 is heterotrimeric. eIF2-gamma is a member of the same family as eubacterial IF2, but the two proteins are only distantly related. This family includes translation initiation, elongation, and release factors. Length = 197

>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

 Score =  180 bits (458), Expect = 2e-55
 Identities = 70/130 (53%), Positives = 82/130 (63%), Gaps = 19/130 (14%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+ KA+SGV T R   EL+R ITIKLGYA+AKIYKC    C RP CY  
Sbjct: 14  GMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPE--CYRPECYT- 70

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
                     C   +C    +LVR VSFVD PGH+ LMATML+GAA+MD ALL+I    A
Sbjct: 71  ------TEPKC--PNCGAETELVRRVSFVDAPGHETLMATMLSGAALMDGALLVI----A 118

Query: 141 AKTPEIVDCP 150
           A  P    CP
Sbjct: 119 ANEP----CP 124

Length = 415

>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit gamma; Validated

 Score =  148 bits (376), Expect = 2e-43
 Identities = 61/130 (46%), Positives = 79/130 (60%), Gaps = 19/130 (14%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+V+A++GV T R   EL+R ITI+LGYA+A I KC    C  P  Y +
Sbjct: 13  GMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKC--PDCEEPEAYTT 70

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
                +         C    +L+R VSFVD PGH+ LMATML+GAA+MD A+L+I    A
Sbjct: 71  EPKCPN---------CGSETELLRRVSFVDAPGHETLMATMLSGAALMDGAILVI----A 117

Query: 141 AKTPEIVDCP 150
           A  P    CP
Sbjct: 118 ANEP----CP 123

Length = 411

>gnl|CDD|211860 TIGR03680, eif2g_arch, translation initiation factor 2 subunit gamma

 Score =  139 bits (352), Expect = 6e-40
 Identities = 63/130 (48%), Positives = 82/130 (63%), Gaps = 19/130 (14%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+ KA++GV T     EL+R I+I+LGYA+A+IYKC   +C  P CY +
Sbjct: 8   GMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKC--PECDGPECYTT 65

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
                     C   +C    +L+R VSFVD PGH+ LMATML+GAA+MD ALL+I    A
Sbjct: 66  EPV-------C--PNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGALLVI----A 112

Query: 141 AKTPEIVDCP 150
           A  P    CP
Sbjct: 113 ANEP----CP 118

This model represents the archaeal translation initiation factor 2 subunit gamma and is found in all known archaea. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. Length = 406

>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 82.3 bits (204), Expect = 3e-20
 Identities = 36/118 (30%), Positives = 54/118 (45%), Gaps = 36/118 (30%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GT GH+ HGK+T++KA++G++T R   E +R ITI LG+A                    
Sbjct: 3   GTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLD----------------- 45

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD 138
                    P             + + F+D PGH+  +  ML GA  +DA LL++  D
Sbjct: 46  --------LPD-----------GKRLGFIDVPGHEKFVKNMLAGAGGIDAVLLVVAAD 84

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea. Length = 170

>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain

 Score = 82.2 bits (204), Expect = 5e-20
 Identities = 30/131 (22%), Positives = 44/131 (33%), Gaps = 50/131 (38%)

Query: 21  GTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKC 67
           G IGHV HGK+T+  A+  V                + K E ER ITIK+          
Sbjct: 7   GIIGHVDHGKTTLTDALLYVTGAISKESAKGARVLDKLKEERERGITIKIAAV------- 59

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
                         +                     R ++ +D PGH      M+ GA+ 
Sbjct: 60  ----------SFETKK--------------------RLINIIDTPGHVDFTKEMIRGASQ 89

Query: 128 MDAALLLIGCD 138
            D A+L++   
Sbjct: 90  ADGAILVVDAV 100

This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. Length = 184

>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation factor; Provisional

 Score = 70.1 bits (172), Expect = 2e-14
 Identities = 42/126 (33%), Positives = 60/126 (47%), Gaps = 38/126 (30%)

Query: 22  TIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG 81
           T GHV HGK+T+++AI+GV   R   E +R +TI LGYA    Y        +P     G
Sbjct: 5   TAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYA----Y------WPQP----DG 50

Query: 82  RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA- 140
           R                       + F+D PGH+  ++ ML G   +D ALL++ CD+  
Sbjct: 51  RV----------------------LGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGV 88

Query: 141 -AKTPE 145
            A+T E
Sbjct: 89  MAQTRE 94

Length = 614

>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

 Score = 68.9 bits (169), Expect = 3e-14
 Identities = 36/128 (28%), Positives = 48/128 (37%), Gaps = 50/128 (39%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKIYKC 67
           GTIGHV HGK+T+  AI+ V   +                E  R ITI   +     Y+ 
Sbjct: 16  GTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVE---YET 72

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
            N                                  RH + VDCPGH   +  M+ GAA 
Sbjct: 73  AN----------------------------------RHYAHVDCPGHADYVKNMITGAAQ 98

Query: 128 MDAALLLI 135
           MD A+L++
Sbjct: 99  MDGAILVV 106

Length = 394

>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

 Score = 68.6 bits (168), Expect = 6e-14
 Identities = 34/119 (28%), Positives = 51/119 (42%), Gaps = 37/119 (31%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GT GH+ HGK+T++KA++G  T R   E +R ITI LG+   K                 
Sbjct: 4   GTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRK----------------- 46

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN 139
                +D                  + F+D PGH   ++ +L G   +D ALL++  D 
Sbjct: 47  ----LED----------------GVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADE 85

Length = 447

>gnl|CDD|206647 cd00881, GTP_translation_factor, GTP translation factor family primarily contains translation initiation, elongation and release factors

 Score = 65.4 bits (160), Expect = 9e-14
 Identities = 31/131 (23%), Positives = 44/131 (33%), Gaps = 50/131 (38%)

Query: 21  GTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKC 67
           G IGHV HGK+T+  ++                     K E ER ITIK G    +  K 
Sbjct: 3   GVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFLDTLKEERERGITIKTGVVEFEWPK- 61

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
                                               R ++F+D PGH+      + G A 
Sbjct: 62  ------------------------------------RRINFIDTPGHEDFSKETVRGLAQ 85

Query: 128 MDAALLLIGCD 138
            D ALL++  +
Sbjct: 86  ADGALLVVDAN 96

The GTP translation factor 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. Length = 183

>gnl|CDD|129567 TIGR00475, selB, selenocysteine-specific elongation factor SelB

 Score = 68.0 bits (166), Expect = 1e-13
 Identities = 34/123 (27%), Positives = 52/123 (42%), Gaps = 37/123 (30%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
            T GHV HGK+T++KA++G+   R   E +R +TI LG+A                    
Sbjct: 4   ATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFA-------------------- 43

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
                   FP               + F+D PGH+  ++  + G   +DAALL++  D  
Sbjct: 44  -------YFPLPD----------YRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEG 86

Query: 141 AKT 143
             T
Sbjct: 87  VMT 89

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 [Protein synthesis, Translation factors]. Length = 581

>gnl|CDD|206676 cd01889, SelB_euk, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 60.1 bits (146), Expect = 1e-11
 Identities = 34/119 (28%), Positives = 57/119 (47%), Gaps = 27/119 (22%)

Query: 21  GTIGHVAHGKSTVVKAISGV-QTVRF-KN--ELERNITIKLGYANAKIYKCDNEKCSRPA 76
           G +GHV  GK+++ KA+S +  T  F KN    ER IT+ LG++               +
Sbjct: 4   GLLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFS---------------S 48

Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
             +    +K        +     +Q    ++ VDCPGH  L+ T++ GA ++D  LL++
Sbjct: 49  FEV----DKPKHLEDNENPQIENYQ----ITLVDCPGHASLIRTIIGGAQIIDLMLLVV 99

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains eukaryotic SelBs and some from archaea. Length = 192

>gnl|CDD|234596 PRK00049, PRK00049, elongation factor Tu; Reviewed

 Score = 59.8 bits (146), Expect = 5e-11
 Identities = 36/127 (28%), Positives = 47/127 (37%), Gaps = 52/127 (40%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKI-YK 66
           GTIGHV HGK+T+  AI+ V   +                E  R ITI      A + Y+
Sbjct: 16  GTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITI----NTAHVEYE 71

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            +                                   RH + VDCPGH   +  M+ GAA
Sbjct: 72  TEK----------------------------------RHYAHVDCPGHADYVKNMITGAA 97

Query: 127 VMDAALL 133
            MD A+L
Sbjct: 98  QMDGAIL 104

Length = 396

>gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed

 Score = 59.9 bits (146), Expect = 6e-11
 Identities = 36/129 (27%), Positives = 49/129 (37%), Gaps = 52/129 (40%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNEL-------------ERNITIKLGYANAKI-YK 66
           GTIGHV HGK+T+  AI+ V   +   E               R ITI      + + Y+
Sbjct: 16  GTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITI----NTSHVEYE 71

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
             N                                  RH + VDCPGH   +  M+ GAA
Sbjct: 72  TAN----------------------------------RHYAHVDCPGHADYVKNMITGAA 97

Query: 127 VMDAALLLI 135
            MD A+L++
Sbjct: 98  QMDGAILVV 106

Length = 396

>gnl|CDD|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed

 Score = 57.3 bits (139), Expect = 4e-10
 Identities = 38/128 (29%), Positives = 50/128 (39%), Gaps = 50/128 (39%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKIYKC 67
           GTIGHV HGK+T+  AI+ V   R  N             E ER ITI   +     Y+ 
Sbjct: 16  GTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVE---YET 72

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
           +                                   RH + VDCPGH   +  M+ GAA 
Sbjct: 73  EK----------------------------------RHYAHVDCPGHADYVKNMITGAAQ 98

Query: 128 MDAALLLI 135
           MD A+L++
Sbjct: 99  MDGAILVV 106

Length = 394

>gnl|CDD|206671 cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-binding proteins

 Score = 54.5 bits (132), Expect = 2e-09
 Identities = 38/119 (31%), Positives = 50/119 (42%), Gaps = 32/119 (26%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAK----IYKCDNEKCSRPA 76
           GTIGHV HGK+T+  AI+ V               K G A AK    I K   EK     
Sbjct: 6   GTIGHVDHGKTTLTAAITKVLA-------------KKGGAKAKKYDEIDKAPEEKARGIT 52

Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
              +    +  +               RH + VDCPGH   +  M+ GAA MD A+L++
Sbjct: 53  INTAHVEYETAN---------------RHYAHVDCPGHADYIKNMITGAAQMDGAILVV 96

EF-Tu subfamily. 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. Length = 195

>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU

 Score = 55.2 bits (133), Expect = 2e-09
 Identities = 36/128 (28%), Positives = 49/128 (38%), Gaps = 50/128 (39%)

Query: 21  GTIGHVAHGKSTVVKAISGV-------QTVRFKN------ELERNITIKLGYANAKIYKC 67
           GTIGHV HGK+T+  AI+ V           +        E  R ITI   +     Y+ 
Sbjct: 16  GTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVE---YET 72

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
           +N                                  RH + VDCPGH   +  M+ GAA 
Sbjct: 73  EN----------------------------------RHYAHVDCPGHADYVKNMITGAAQ 98

Query: 128 MDAALLLI 135
           MD A+L++
Sbjct: 99  MDGAILVV 106

This model 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 [Protein synthesis, Translation factors]. Length = 394

>gnl|CDD|177010 CHL00071, tufA, elongation factor Tu

 Score = 53.8 bits (130), Expect = 6e-09
 Identities = 35/128 (27%), Positives = 48/128 (37%), Gaps = 50/128 (39%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKIYKC 67
           GTIGHV HGK+T+  AI+     +                E  R ITI   +     Y+ 
Sbjct: 16  GTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVE---YET 72

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
           +N                                  RH + VDCPGH   +  M+ GAA 
Sbjct: 73  EN----------------------------------RHYAHVDCPGHADYVKNMITGAAQ 98

Query: 128 MDAALLLI 135
           MD A+L++
Sbjct: 99  MDGAILVV 106

Length = 409

>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional

 Score = 53.3 bits (128), Expect = 1e-08
 Identities = 38/129 (29%), Positives = 50/129 (38%), Gaps = 52/129 (40%)

Query: 21  GTIGHVAHGKSTVVKAISGV-------QTVRFKN------ELERNITIKLGYANAKI-YK 66
           GTIGHV HGK+T+  AI+ V       + V F        E  R ITI    A A + Y+
Sbjct: 65  GTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITI----ATAHVEYE 120

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
                                                RH + VDCPGH   +  M+ GAA
Sbjct: 121 TAK----------------------------------RHYAHVDCPGHADYVKNMITGAA 146

Query: 127 VMDAALLLI 135
            MD  +L++
Sbjct: 147 QMDGGILVV 155

Length = 447

>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain

 Score = 47.5 bits (114), Expect = 4e-07
 Identities = 11/28 (39%), Positives = 17/28 (60%)

Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
           I+D PGH      M+ GA+  D A+L++
Sbjct: 70  IIDTPGHVDFTKEMIRGASQADGAILVV 97

This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. Length = 184

>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional

 Score = 48.5 bits (115), Expect = 5e-07
 Identities = 35/119 (29%), Positives = 53/119 (44%), Gaps = 25/119 (21%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  A++                  +G +  K Y   +E  + P     
Sbjct: 85  GTIGHVDHGKTTLTAALTMA-------------LASMGGSAPKKY---DEIDAAPEERAR 128

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI-GCD 138
           G +        + ++        RH + VDCPGH   +  M+ GAA MD A+L++ G D
Sbjct: 129 GIT--------INTATVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGAD 179

Length = 478

>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 43.4 bits (103), Expect = 2e-05
 Identities = 27/133 (20%), Positives = 47/133 (35%), Gaps = 41/133 (30%)

Query: 23  IGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAK-IYKCDNEKCSRPACYISG 81
           IGHV  GKST+V                  +   LG  + + + K + E         + 
Sbjct: 13  IGHVDAGKSTLVG----------------RLLYDLGEIDKRTMEKLEKE---------AK 47

Query: 82  RSNKD--------DSFPCLR------SSCTGRFQL-VRHVSFVDCPGHDILMATMLNGAA 126
              K+        D     R           +F+    + + +D PGH   +  M+ GA+
Sbjct: 48  ELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGAS 107

Query: 127 VMDAALLLIGCDN 139
             D A+L++   +
Sbjct: 108 QADVAVLVVDARD 120

Length = 428

>gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha

 Score = 42.9 bits (101), Expect = 3e-05
 Identities = 35/125 (28%), Positives = 51/125 (40%), Gaps = 23/125 (18%)

Query: 23  IGHVAHGKSTVVK-------AISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRP 75
           IGHV HGKST V        AI      +F+ E +        +A    +  D  K  R 
Sbjct: 13  IGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFA----WVMDRLKEERE 68

Query: 76  ACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
                 R    D         T +++    V+ VDCPGH   +  M+ GA+  DAA+L++
Sbjct: 69  ------RGVTIDV--AHWKFETDKYE----VTIVDCPGHRDFIKNMITGASQADAAVLVV 116

Query: 136 GCDNA 140
              + 
Sbjct: 117 AVGDG 121

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 [Protein synthesis, Translation factors]. Length = 426

>gnl|CDD|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 47/184 (25%), Positives = 67/184 (36%), Gaps = 80/184 (43%)

Query: 23  IGHVAHGKSTVV------------KAIS---------GVQTVRF-------KNELERNIT 54
           IGHV HGKST+V              I          G ++ +F       K E ER +T
Sbjct: 12  IGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVT 71

Query: 55  IKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGH 114
           I L +      K + +K                                 + + VDCPGH
Sbjct: 72  IDLAH-----KKFETDK--------------------------------YYFTIVDCPGH 94

Query: 115 DILMATMLNGAAVMDAALLLIGCDNA----AKTPEIVDCPGHDILMATM-LNGAAV---- 165
              +  M+ GA+  DAA+L++  D+A     +T E      H  L  T+ +N   V    
Sbjct: 95  RDFVKNMITGASQADAAVLVVAADDAGGVMPQTRE------HVFLARTLGINQLIVAINK 148

Query: 166 MDAA 169
           MDA 
Sbjct: 149 MDAV 152

Length = 425

>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 38.7 bits (91), Expect = 4e-04
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 142 KTPEIVDCPGHDILMATMLNGAAVMDAALLLI 173
           K    +D PGH+  +  ML GA  +DA LL++
Sbjct: 50  KRLGFIDVPGHEKFVKNMLAGAGGIDAVLLVV 81

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea. Length = 170

>gnl|CDD|227583 COG5258, GTPBP1, GTPase [General function prediction only]

 Score = 39.4 bits (92), Expect = 6e-04
 Identities = 32/132 (24%), Positives = 56/132 (42%), Gaps = 27/132 (20%)

Query: 21  GTIGHVAHGKSTVVKAI--------SGVQTV---RFKNELERNITIKLGYANAKIYKCDN 69
           G  GHV HGKST+V  +         G         K+E+ER ++  +      +Y  D+
Sbjct: 121 GVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLR---VYGFDD 177

Query: 70  EKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNG--AAV 127
            K  R    +    ++ +    ++ +        + VSFVD  GH+  + T + G     
Sbjct: 178 GKVVR----LKNPLDEAEKAAVVKRA-------DKLVSFVDTVGHEPWLRTTIRGLLGQK 226

Query: 128 MDAALLLIGCDN 139
           +D  LL++  D+
Sbjct: 227 VDYGLLVVAADD 238

Length = 527

>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional

 Score = 39.0 bits (91), Expect = 8e-04
 Identities = 33/125 (26%), Positives = 48/125 (38%), Gaps = 38/125 (30%)

Query: 23  IGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLG-YANAKIYKCDNEKCSRPACYISG 81
           +GHV HGK+T++  I   Q      +    IT K+G Y     YK +N+K          
Sbjct: 250 LGHVDHGKTTLLDKIRKTQIA---QKEAGGITQKIGAYEVEFEYKDENQK---------- 296

Query: 82  RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA 141
                                   + F+D PGH+   +    GA V D A+L+I  D+  
Sbjct: 297 ------------------------IVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGV 332

Query: 142 KTPEI 146
           K   I
Sbjct: 333 KPQTI 337

Length = 742

>gnl|CDD|206676 cd01889, SelB_euk, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 38.1 bits (89), Expect = 9e-04
 Identities = 13/27 (48%), Positives = 20/27 (74%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALLLI 173
           VDCPGH  L+ T++ GA ++D  LL++
Sbjct: 73  VDCPGHASLIRTIIGGAQIIDLMLLVV 99

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains eukaryotic SelBs and some from archaea. Length = 192

>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

 Score = 38.0 bits (89), Expect = 0.001
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALLLI 173
           VDCPGH   +  M+ GAA MD A+L++
Sbjct: 80  VDCPGHADYVKNMITGAAQMDGAILVV 106

Length = 394

>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU

 Score = 38.2 bits (89), Expect = 0.001
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALLLI 173
           VDCPGH   +  M+ GAA MD A+L++
Sbjct: 80  VDCPGHADYVKNMITGAAQMDGAILVV 106

This model 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 [Protein synthesis, Translation factors]. Length = 394

>gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 18/38 (47%), Positives = 26/38 (68%), Gaps = 4/38 (10%)

Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI----GKFKVQ 179
           IVDCPGH   +  M+ GA+  DAA+L++    G+F+VQ
Sbjct: 89  IVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQ 126

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 [Protein synthesis, Translation factors]. Length = 426

>gnl|CDD|206647 cd00881, GTP_translation_factor, GTP translation factor family primarily contains translation initiation, elongation and release factors

 Score = 37.3 bits (87), Expect = 0.002
 Identities = 10/28 (35%), Positives = 15/28 (53%)

Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
            +D PGH+      + G A  D ALL++
Sbjct: 66  FIDTPGHEDFSKETVRGLAQADGALLVV 93

The GTP translation factor 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. Length = 183

>gnl|CDD|234596 PRK00049, PRK00049, elongation factor Tu; Reviewed

 Score = 37.5 bits (88), Expect = 0.002
 Identities = 14/25 (56%), Positives = 17/25 (68%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALL 171
           VDCPGH   +  M+ GAA MD A+L
Sbjct: 80  VDCPGHADYVKNMITGAAQMDGAIL 104

Length = 396

>gnl|CDD|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed

 Score = 37.2 bits (87), Expect = 0.002
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALLLI 173
           VDCPGH   +  M+ GAA MD A+L++
Sbjct: 80  VDCPGHADYVKNMITGAAQMDGAILVV 106

Length = 394

>gnl|CDD|177010 CHL00071, tufA, elongation factor Tu

 Score = 37.2 bits (87), Expect = 0.002
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALLLI 173
           VDCPGH   +  M+ GAA MD A+L++
Sbjct: 80  VDCPGHADYVKNMITGAAQMDGAILVV 106

Length = 409

>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 145 EIVDCPGHDILMATMLNGAAVMDAALLLI 173
            I+D PGH   +  M+ GA+  D A+L++
Sbjct: 88  TIIDAPGHRDFVKNMITGASQADVAVLVV 116

Length = 428

>gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed

 Score = 37.1 bits (87), Expect = 0.003
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALLLI 173
           VDCPGH   +  M+ GAA MD A+L++
Sbjct: 80  VDCPGHADYVKNMITGAAQMDGAILVV 106

Length = 396

>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional

 Score = 37.3 bits (86), Expect = 0.003
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 147 VDCPGHDILMATMLNGAAVMDAALLLI 173
           VDCPGH   +  M+ GAA MD A+L++
Sbjct: 149 VDCPGHADYVKNMITGAAQMDGAILVV 175

Length = 478

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	182
KOG0466|consensus	466		99.97
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.96
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.95
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.95
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.94
KOG0460|consensus	449		99.93
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.9
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.89
PLN03127	447	Elongation factor Tu; Provisional	99.87
PRK12736	394	elongation factor Tu; Reviewed	99.87
CHL00071	409	tufA elongation factor Tu	99.87
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.87
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.86
PTZ00141	446	elongation factor 1- alpha; Provisional	99.86
PLN03126	478	Elongation factor Tu; Provisional	99.86
KOG0462|consensus	650		99.86
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.86
PRK12735	396	elongation factor Tu; Reviewed	99.86
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.86
PLN00043	447	elongation factor 1-alpha; Provisional	99.86
PRK00049	396	elongation factor Tu; Reviewed	99.85
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.85
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.85
KOG0458|consensus	603		99.84
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.84
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.84
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.84
PRK12317	425	elongation factor 1-alpha; Reviewed	99.83
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.83
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.83
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.82
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.82
PTZ00416	836	elongation factor 2; Provisional	99.82
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.81
PRK00007	693	elongation factor G; Reviewed	99.81
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.81
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.81
KOG1145|consensus	683		99.8
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.8
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.8
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.8
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.8
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.8
PRK12739	691	elongation factor G; Reviewed	99.8
PRK07560	731	elongation factor EF-2; Reviewed	99.79
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.79
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.78
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.78
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.78
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.78
KOG0469|consensus	842		99.77
KOG0461|consensus	522		99.77
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.77
PRK05433	600	GTP-binding protein LepA; Provisional	99.76
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.76
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.75
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.74
PRK10218	607	GTP-binding protein; Provisional	99.74
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.73
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.73
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.73
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.72
KOG0467|consensus	887		99.72
PRK05306	787	infB translation initiation factor IF-2; Validated	99.71
KOG0468|consensus	971		99.7
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.69
KOG0464|consensus	753		99.69
CHL00189	742	infB translation initiation factor 2; Provisional	99.69
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.69
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.68
PRK13351	687	elongation factor G; Reviewed	99.68
KOG0465|consensus	721		99.65
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.65
COG1159	298	Era GTPase [General function prediction only]	99.64
COG5258	527	GTPBP1 GTPase [General function prediction only]	99.63
PRK04004	586	translation initiation factor IF-2; Validated	99.6
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.58
cd00881	189	GTP_translation_factor GTP translation factor fami	99.58
PRK12740	668	elongation factor G; Reviewed	99.55
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.55
KOG0459|consensus	501		99.49
COG1160	444	Predicted GTPases [General function prediction onl	99.44
KOG1144|consensus	1064		99.44
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.42
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.4
KOG0463|consensus	641		99.39
PRK00093	435	GTP-binding protein Der; Reviewed	99.39
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.39
PRK00089	292	era GTPase Era; Reviewed	99.38
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.37
COG2229	187	Predicted GTPase [General function prediction only	99.36
PRK15494	339	era GTPase Era; Provisional	99.36
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.36
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.35
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.34
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.33
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.32
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.32
COG1160	444	Predicted GTPases [General function prediction onl	99.31
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.31
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.3
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.29
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.29
KOG1143|consensus	591		99.29
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.28
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.28
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.28
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.28
PRK00093	435	GTP-binding protein Der; Reviewed	99.28
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.28
PRK03003	472	GTP-binding protein Der; Reviewed	99.27
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.27
KOG1423|consensus	379		99.26
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.25
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.25
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.24
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.24
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.24
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.23
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.23
PRK03003	472	GTP-binding protein Der; Reviewed	99.23
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.22
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.22
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.22
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.21
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.21
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.21
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.21
KOG0052|consensus	391		99.21
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.2
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.19
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.19
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.19
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.18
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.18
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.18
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.18
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.17
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.17
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.16
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.16
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.16
PRK04213	201	GTP-binding protein; Provisional	99.16
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.15
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.15
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.15
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.15
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.15
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.14
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.14
COG0486	454	ThdF Predicted GTPase [General function prediction	99.14
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.13
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.13
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.13
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.12
PRK14845	1049	translation initiation factor IF-2; Provisional	99.12
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.12
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.12
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.11
PRK12298	390	obgE GTPase CgtA; Reviewed	99.11
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.11
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.11
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.11
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.1
PLN00223	181	ADP-ribosylation factor; Provisional	99.1
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.1
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.09
PRK11058	426	GTPase HflX; Provisional	99.09
COG0218	200	Predicted GTPase [General function prediction only	99.07
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.07
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.07
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.06
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.06
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.05
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.04
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.01
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.01
COG1084	346	Predicted GTPase [General function prediction only	99.0
PRK12299	335	obgE GTPase CgtA; Reviewed	99.0
PLN03118	211	Rab family protein; Provisional	98.99
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.99
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	98.98
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.97
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	98.97
PTZ00369	189	Ras-like protein; Provisional	98.97
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	98.97
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	98.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.96
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	98.96
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	98.95
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	98.95
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	98.95
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.95
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	98.94
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.94
PLN03110	216	Rab GTPase; Provisional	98.93
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	98.93
PTZ00133	182	ADP-ribosylation factor; Provisional	98.93
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	98.92
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.92
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.92
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	98.91
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	98.91
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	98.91
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	98.91
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.91
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	98.9
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.89
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	98.89
PRK09866	741	hypothetical protein; Provisional	98.89
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	98.88
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	98.88
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	98.87
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	98.87
PRK12296	500	obgE GTPase CgtA; Reviewed	98.86
KOG1191|consensus	531		98.84
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	98.84
PLN03108	210	Rab family protein; Provisional	98.83
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	98.83
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	98.81
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.8
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	98.79
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.79
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	98.78
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	98.78
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	98.77
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	98.76
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.76
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.75
PTZ00258	390	GTP-binding protein; Provisional	98.75
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.74
COG2262	411	HflX GTPases [General function prediction only]	98.74
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	98.73
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	98.73
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.72
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	98.72
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.7
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.69
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	98.69
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	98.68
PRK09601	364	GTP-binding protein YchF; Reviewed	98.68
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	98.68
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	98.67
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	98.66
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.66
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	98.65
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	98.61
COG3596	296	Predicted GTPase [General function prediction only	98.61
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	98.6
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	98.6
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	98.6
KOG0073|consensus	185		98.59
PRK12297	424	obgE GTPase CgtA; Reviewed	98.58
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	98.57
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.56
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	98.56
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.55
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	98.52
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.5
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	98.5
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.5
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	98.49
COG1100	219	GTPase SAR1 and related small G proteins [General	98.47
PRK09602	396	translation-associated GTPase; Reviewed	98.47
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	98.47
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.47
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.45
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	98.45
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.4
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.39
KOG0090|consensus	238		98.38
KOG1489|consensus	366		98.37
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.34
KOG0080|consensus	209		98.33
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.32
COG1163	365	DRG Predicted GTPase [General function prediction	98.32
KOG0394|consensus	210		98.31
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.29
KOG0094|consensus	221		98.27
PLN00023	334	GTP-binding protein; Provisional	98.27
KOG0098|consensus	216		98.23
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.23
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.22
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.21
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.2
KOG0075|consensus	186		98.19
PRK12288	347	GTPase RsgA; Reviewed	98.19
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.18
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.17
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.15
COG1162	301	Predicted GTPases [General function prediction onl	98.15
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.14
KOG0076|consensus	197		98.12
KOG0084|consensus	205		98.1
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.1
COG1161	322	Predicted GTPases [General function prediction onl	98.09
KOG0074|consensus	185		98.08
KOG0092|consensus	200		98.07
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	98.06
PRK13768	253	GTPase; Provisional	98.03
KOG0078|consensus	207		98.02
PRK12289	352	GTPase RsgA; Reviewed	98.01
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.99
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.98
KOG0070|consensus	181		97.97
KOG0410|consensus	410		97.93
PRK13796	365	GTPase YqeH; Provisional	97.91
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.91
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.9
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	97.9
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	97.9
cd03114	148	ArgK-like The function of this protein family is u	97.86
KOG0095|consensus	213		97.86
COG5019	373	CDC3 Septin family protein [Cell division and chro	97.86
KOG1954|consensus	532		97.85
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.84
PRK00098	298	GTPase RsgA; Reviewed	97.84
PRK10416	318	signal recognition particle-docking protein FtsY;	97.82
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.82
KOG0077|consensus	193		97.81
KOG0395|consensus	196		97.79
KOG1547|consensus	336		97.79
COG0012	372	Predicted GTPase, probable translation factor [Tra	97.74
KOG1532|consensus	366		97.74
KOG2486|consensus	320		97.74
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.74
KOG0087|consensus	222		97.7
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.68
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.62
KOG0093|consensus	193		97.6
KOG1486|consensus	364		97.59
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.56
cd03112	158	CobW_like The function of this protein family is u	97.55
KOG2655|consensus	366		97.54
KOG1424|consensus	562		97.46
PRK14974	336	cell division protein FtsY; Provisional	97.45
KOG0086|consensus	214		97.38
KOG0079|consensus	198		97.34
COG0536	369	Obg Predicted GTPase [General function prediction	97.32
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.31
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.31
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	97.29
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.27
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.27
KOG2423|consensus	572		97.25
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.25
KOG2485|consensus	335		97.15
PRK01889	356	GTPase RsgA; Reviewed	97.14
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.13
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.13
KOG4181|consensus	491		97.11
KOG0088|consensus	218		97.08
KOG0071|consensus	180		97.05
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.05
KOG1491|consensus	391		97.02
PRK10867	433	signal recognition particle protein; Provisional	97.0
KOG1707|consensus	625		97.0
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.99
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.98
TIGR00959	428	ffh signal recognition particle protein. This mode	96.95
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.92
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.91
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.86
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.85
KOG2484|consensus	435		96.84
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.82
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.78
PRK05480	209	uridine/cytidine kinase; Provisional	96.77
KOG0083|consensus	192		96.73
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.72
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.7
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.69
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.69
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.68
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.68
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	96.68
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.65
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.64
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.64
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.63
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.63
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.63
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.63
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.63
PRK08233	182	hypothetical protein; Provisional	96.62
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	96.61
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.6
COG3638	258	ABC-type phosphate/phosphonate transport system, A	96.59
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.59
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.58
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.58
KOG1490|consensus	620		96.58
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.57
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.57
PRK07261	171	topology modulation protein; Provisional	96.56
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.56
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.55
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.55
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.54
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	96.54
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.54
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.54
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	96.53
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.53
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.53
KOG4252|consensus	246		96.53
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.52
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.52
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	96.52
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.51
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.51
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.5
PRK08118	167	topology modulation protein; Reviewed	96.5
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	96.49
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.49
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.49
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.49
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.49
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.48
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	96.48
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.48
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.48
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	96.47
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.47
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.47
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.47
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.46
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	96.46
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.46
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.45
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.45
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.44
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	96.44
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.44
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.44
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.44
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	96.43
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	96.43
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.43
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	96.42
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.42
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	96.42
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.42
smart00382	148	AAA ATPases associated with a variety of cellular	96.42
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.41
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	96.41
cd03234	226	ABCG_White The White subfamily represents ABC tran	96.41
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	96.4
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.39
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.39
cd03246	173	ABCC_Protease_Secretion This family represents the	96.39
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	96.39
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	96.38
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.38
PRK10908	222	cell division protein FtsE; Provisional	96.38
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.38
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	96.37
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	96.37
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	96.37
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.36
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	96.36
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.36
PRK00300	205	gmk guanylate kinase; Provisional	96.36
cd03274	212	ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC protein	96.35
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	96.35
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	96.35
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	96.35
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.35
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.34
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	96.34
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.34
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	96.34
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.34
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	96.34
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	96.34
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	96.34
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	96.33
COG4559	259	ABC-type hemin transport system, ATPase component	96.33
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	96.33
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	96.33
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	96.33
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	96.33
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	96.32
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	96.32
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.32
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	96.31
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	96.31
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	96.31
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	96.31
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	96.31
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	96.3
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	96.3
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	96.3
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	96.3
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	96.29
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.29
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	96.29
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	96.29
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	96.29
cd03273	251	ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC protein	96.29

>KOG0466|consensus

Probab=99.97  E-value=1.7e-32  Score=229.79  Aligned_cols=167  Identities=60%  Similarity=0.926  Sum_probs=153.2

Q ss_pred             CCCCccccccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCC
Q psy1174           5 GTLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSN   84 (182)
Q Consensus         5 ~~~~~~~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (182)
                      .|+++++++++..+||+.|||+.|||||++.+++|..+.+|+.|.||++|++++|++.++|+|++++|++|.||++.+|.
T Consensus        26 ~pls~evisRQATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~  105 (466)
T KOG0466|consen   26 HPLSPEVISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSS  105 (466)
T ss_pred             CCCCHHHhhheeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCC
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----HHhH
Q psy1174          85 KDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----MATM  159 (182)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~~~~  159 (182)
                      ++++++|.+.++...+..-+++.|+|||||.-++.+|+.|++..|+|+|+|.+++.++|+||.|||.-.-+     ...+
T Consensus       106 k~d~~~c~~~g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~Lkhiiil  185 (466)
T KOG0466|consen  106 KEDRPPCDRPGCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMKLKHIIIL  185 (466)
T ss_pred             CCCCCCcccCCCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhhhceEEEE
Confidence            99999999999999888889999999999999999999999999999999999999999999995421111     1144


Q ss_pred             hccchhhhHHHH
Q psy1174         160 LNGAAVMDAALL  171 (182)
Q Consensus       160 ~nk~d~~~~~~~  171 (182)
                      -||+|++.+...
T Consensus       186 QNKiDli~e~~A  197 (466)
T KOG0466|consen  186 QNKIDLIKESQA  197 (466)
T ss_pred             echhhhhhHHHH
Confidence            799998875543

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=9.8e-29  Score=208.06  Aligned_cols=144  Identities=47%  Similarity=0.778  Sum_probs=121.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..||+.+||++||||||+.+|+|.++++|.+|.+||+|+.++|++..+|+|.+  |..|.+|..+       +.|++.
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~--c~~~~~y~~~-------~~C~~c   78 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPE--CYRPECYTTE-------PKCPNC   78 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCC--CCCCcccccC-------CCCCCC
Confidence            6788999999999999999999999999999999999999999999999999964  6666666533       555543


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHH--------hHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMA--------TMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~--------~~~nk~d~~  166 (182)
                      ++  .....+++.|+|+|||+-++.+|++|++.+|+|+|||+|++.++|+||+|   |...+-        ..-||+|++
T Consensus        79 g~--~~~l~R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~E---Hl~AleIigik~iiIvQNKIDlV  153 (415)
T COG5257          79 GA--ETELVRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTRE---HLMALEIIGIKNIIIVQNKIDLV  153 (415)
T ss_pred             CC--CccEEEEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHH---HHHHHhhhccceEEEEeccccee
Confidence            32  22445899999999999999999999999999999999999999999999   532222        347999999


Q ss_pred             hHHHHh
Q psy1174         167 DAALLL  172 (182)
Q Consensus       167 ~~~~~~  172 (182)
                      +++..+
T Consensus       154 ~~E~Al  159 (415)
T COG5257         154 SRERAL  159 (415)
T ss_pred             cHHHHH
Confidence            866554

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.95  E-value=1.4e-27  Score=212.56  Aligned_cols=158  Identities=58%  Similarity=0.875  Sum_probs=122.8

Q ss_pred             CCCccccccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCC
Q psy1174           6 TLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNK   85 (182)
Q Consensus         6 ~~~~~~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (182)
                      |+.++++.++++.+|+++||+|||||||+++|++..++++++|.+||+|++++|+.+..|+|  .+|..|.+|....+..
T Consensus        23 ~~~~~~~~~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~--~~~~~~~~~~~~~~~~  100 (460)
T PTZ00327         23 PLTPEVISRQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKC--PKCPRPTCYQSYGSSK  100 (460)
T ss_pred             cCCHHHccCCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccC--cccCCcccccccCCCc
Confidence            34456678899999999999999999999999999999999999999999999998888877  4566666665444332


Q ss_pred             CCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----HHhHh
Q psy1174          86 DDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----MATML  160 (182)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~~~~~  160 (182)
                      ..+..++..+  ......++++|||||||++|.++|+.|++.+|+++|||||.+|.+++||+|++..+.+     ...++
T Consensus       101 ~~~~~~~~~~--~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvl  178 (460)
T PTZ00327        101 PDNPPCPGCG--HKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQ  178 (460)
T ss_pred             cccccccccc--ccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEE
Confidence            2223332211  1223347899999999999999999999999999999999986478999995432211     12469


Q ss_pred             ccchhhh
Q psy1174         161 NGAAVMD  167 (182)
Q Consensus       161 nk~d~~~  167 (182)
                      ||+|+.+
T Consensus       179 NKiDlv~  185 (460)
T PTZ00327        179 NKIDLVK  185 (460)
T ss_pred             ecccccC
Confidence            9999875

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.95  E-value=3.5e-28  Score=202.83  Aligned_cols=127  Identities=35%  Similarity=0.551  Sum_probs=108.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCc-------------cchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQT-------------VRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~-------------~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      .+++.||+.|||+|||||||..+|.+...             +..++|++||+|+...-..   |               
T Consensus         9 ~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahve---y---------------   70 (394)
T COG0050           9 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVE---Y---------------   70 (394)
T ss_pred             CCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeE---E---------------
Confidence            47889999999999999999999974332             3467899999999875432   1               


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHH---
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMA---  157 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~---  157 (182)
                                         ++.++++..+|||||.+|.++|+.|++++|+|||||+|.+| +.+||+|   |.+|+.   
T Consensus        71 -------------------et~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dG-pmPqTrE---HiLlarqvG  127 (394)
T COG0050          71 -------------------ETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG-PMPQTRE---HILLARQVG  127 (394)
T ss_pred             -------------------ecCCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCC-CCCcchh---hhhhhhhcC
Confidence                               13348999999999999999999999999999999999999 9999999   766644   


Q ss_pred             -----hHhccchhhh-HHHHhhhcceeecC
Q psy1174         158 -----TMLNGAAVMD-AALLLIGKFKVQDM  181 (182)
Q Consensus       158 -----~~~nk~d~~~-~~~~~~~~~~~~~~  181 (182)
                           .|+||+|++| ++++...+++++|+
T Consensus       128 vp~ivvflnK~Dmvdd~ellelVemEvreL  157 (394)
T COG0050         128 VPYIVVFLNKVDMVDDEELLELVEMEVREL  157 (394)
T ss_pred             CcEEEEEEecccccCcHHHHHHHHHHHHHH
Confidence                 6799999986 99999999998885

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.94  E-value=1.3e-26  Score=200.43  Aligned_cols=117  Identities=26%  Similarity=0.369  Sum_probs=99.5

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHh---cCC-------------------------ccchhhHhhhceeeeeccccce
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAIS---GVQ-------------------------TVRFKNELERNITIKLGYANAK   63 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~---g~~-------------------------~~~~~~e~~~g~t~~~~~~~~~   63 (182)
                      ...+++.|++++||+|||||||+++|+   |..                         .|+.++|++||+|++...+.+.
T Consensus         2 ~~~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fe   81 (428)
T COG5256           2 ASEKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFE   81 (428)
T ss_pred             CCCCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEee
Confidence            456899999999999999999999997   332                         2467889999999998875422


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc--
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA--  141 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~--  141 (182)
                                                           ++.+.++++|||||.+|.++|+.|+++||+|||||||..|+  
T Consensus        82 -------------------------------------t~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE  124 (428)
T COG5256          82 -------------------------------------TDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFE  124 (428)
T ss_pred             -------------------------------------cCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccc
Confidence                                                 33478999999999999999999999999999999999985  


Q ss_pred             ----ccccccccchhhHHHHhH--------hccchhhhH
Q psy1174         142 ----KTPEIVDCPGHDILMATM--------LNGAAVMDA  168 (182)
Q Consensus       142 ----~~~qt~e~l~~~il~~~~--------~nk~d~~~~  168 (182)
                          +.+||+|   |++|+.++        +||.|.+++
T Consensus       125 ~g~~~~gQtrE---H~~La~tlGi~~lIVavNKMD~v~w  160 (428)
T COG5256         125 AGFGVGGQTRE---HAFLARTLGIKQLIVAVNKMDLVSW  160 (428)
T ss_pred             cccccCCchhH---HHHHHHhcCCceEEEEEEccccccc
Confidence                8999999   88887754        899988753

>KOG0460|consensus

Probab=99.93  E-value=6.9e-27  Score=198.08  Aligned_cols=127  Identities=30%  Similarity=0.521  Sum_probs=107.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCC-------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQ-------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~-------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      ++|+.||+.|||+|||||||..++....             -|+-++|++||+|+...-..                   
T Consensus        51 ~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHve-------------------  111 (449)
T KOG0460|consen   51 DKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVE-------------------  111 (449)
T ss_pred             CCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeee-------------------
Confidence            6799999999999999999999997332             23567899999999764321                   


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHH---
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMA---  157 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~---  157 (182)
                                        .++..+++..+|||||.||+++|+.|+++.|+|||||+|.+| +.+||+|   |.+|+.   
T Consensus       112 ------------------YeTa~RhYaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG-~MPQTrE---HlLLArQVG  169 (449)
T KOG0460|consen  112 ------------------YETAKRHYAHTDCPGHADYIKNMITGAAQMDGAILVVAATDG-PMPQTRE---HLLLARQVG  169 (449)
T ss_pred             ------------------eeccccccccCCCCchHHHHHHhhcCccccCceEEEEEcCCC-CCcchHH---HHHHHHHcC
Confidence                              123348899999999999999999999999999999999999 9999999   777765   


Q ss_pred             -----hHhccchhh-hHHHHhhhcceeecC
Q psy1174         158 -----TMLNGAAVM-DAALLLIGKFKVQDM  181 (182)
Q Consensus       158 -----~~~nk~d~~-~~~~~~~~~~~~~~~  181 (182)
                           .|+||.|++ |.+++...+++.|.|
T Consensus       170 V~~ivvfiNKvD~V~d~e~leLVEmE~REl  199 (449)
T KOG0460|consen  170 VKHIVVFINKVDLVDDPEMLELVEMEIREL  199 (449)
T ss_pred             CceEEEEEecccccCCHHHHHHHHHHHHHH
Confidence                 789999998 799998888887653

>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=99.90  E-value=6e-25  Score=173.63  Aligned_cols=117  Identities=26%  Similarity=0.429  Sum_probs=94.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC---------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ---------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~---------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ++++||+++||+|||||||+++|++..               .+..+.|.++++|+......+.                
T Consensus         1 k~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~----------------   64 (188)
T PF00009_consen    1 KNIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFE----------------   64 (188)
T ss_dssp             STEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEE----------------
T ss_pred             CCEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhccccccccccccc----------------
Confidence            467899999999999999999998322               2346778889999887664321                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                         .....++++|||||||.+|.+++.+++..+|+||+|||+.+| +..|+++++..+    +.
T Consensus        65 -------------------~~~~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g-~~~~~~~~l~~~~~~~~p  124 (188)
T PF00009_consen   65 -------------------KNENNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDG-IQPQTEEHLKILRELGIP  124 (188)
T ss_dssp             -------------------BTESSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTB-STHHHHHHHHHHHHTT-S
T ss_pred             -------------------ccccccceeecccccccceeecccceecccccceeeeecccc-cccccccccccccccccc
Confidence                               001228999999999999999999999999999999999999 999999966544    33


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|...
T Consensus       125 ~ivvlNK~D~~~  136 (188)
T PF00009_consen  125 IIVVLNKMDLIE  136 (188)
T ss_dssp             EEEEEETCTSSH
T ss_pred             eEEeeeeccchh
Confidence            457799999874

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 ....

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.89  E-value=1.9e-23  Score=167.22  Aligned_cols=114  Identities=34%  Similarity=0.499  Sum_probs=91.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGR   82 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (182)
                      ++.||+++||+|||||||+++|++.             ..++.+.|++||+|++.....+                    
T Consensus         1 ~~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~--------------------   60 (195)
T cd01884           1 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEY--------------------   60 (195)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEe--------------------
Confidence            4678999999999999999999843             1346688999999998765321                    


Q ss_pred             CCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----HH
Q psy1174          83 SNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----MA  157 (182)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~~  157 (182)
                               .+.        .++++|||||||.+|..++..++..+|+|++|||+.+| +..|+++++..+..     ..
T Consensus        61 ---------~~~--------~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g-~~~~~~~~~~~~~~~~~~~iI  122 (195)
T cd01884          61 ---------ETA--------NRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDG-PMPQTREHLLLARQVGVPYIV  122 (195)
T ss_pred             ---------cCC--------CeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCCcEE
Confidence                     111        27899999999999999999999999999999999999 99999986654321     22


Q ss_pred             hHhccchhhh
Q psy1174         158 TMLNGAAVMD  167 (182)
Q Consensus       158 ~~~nk~d~~~  167 (182)
                      .++||+|.++
T Consensus       123 vviNK~D~~~  132 (195)
T cd01884         123 VFLNKADMVD  132 (195)
T ss_pred             EEEeCCCCCC
Confidence            5689999763

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.87  E-value=1.5e-22  Score=180.00  Aligned_cols=116  Identities=33%  Similarity=0.488  Sum_probs=94.5

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      .++++||+++||+|||||||+++|.+.             ..|+.++|++||+|++.....+.                 
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~-----------------  120 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYE-----------------  120 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEc-----------------
Confidence            578899999999999999999999732             24566789999999997653210                 


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----  155 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----  155 (182)
                                          ...++++|||||||.+|..++..++..+|+++||||+.+| +..||++++..+..     
T Consensus       121 --------------------~~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g-~~~qt~e~l~~~~~~gip~  179 (447)
T PLN03127        121 --------------------TAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDG-PMPQTKEHILLARQVGVPS  179 (447)
T ss_pred             --------------------CCCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCC-CchhHHHHHHHHHHcCCCe
Confidence                                1127899999999999999999999999999999999999 99999996654321     


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|.++
T Consensus       180 iIvviNKiDlv~  191 (447)
T PLN03127        180 LVVFLNKVDVVD  191 (447)
T ss_pred             EEEEEEeeccCC
Confidence            124589999874

>PRK12736 elongation factor Tu; Reviewed

Probab=99.87  E-value=1.5e-22  Score=177.46  Aligned_cols=116  Identities=34%  Similarity=0.484  Sum_probs=94.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      +++++||+++||+|||||||+++|++.             ..++.++|+++|+|++.....+.                 
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~-----------------   71 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYE-----------------   71 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEec-----------------
Confidence            678899999999999999999999853             24567899999999988653210                 


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----  155 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----  155 (182)
                                          ...++++|||||||.+|..++..++..+|++++|||+.+| +..||++++..+..     
T Consensus        72 --------------------~~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g-~~~~t~~~~~~~~~~g~~~  130 (394)
T PRK12736         72 --------------------TEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG-PMPQTREHILLARQVGVPY  130 (394)
T ss_pred             --------------------CCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCC-CchhHHHHHHHHHHcCCCE
Confidence                                1127899999999999999999999999999999999999 99999996654321     


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|.++
T Consensus       131 ~IvviNK~D~~~  142 (394)
T PRK12736        131 LVVFLNKVDLVD  142 (394)
T ss_pred             EEEEEEecCCcc
Confidence            124599999874

>CHL00071 tufA elongation factor Tu

Probab=99.87  E-value=1.2e-22  Score=178.69  Aligned_cols=117  Identities=32%  Similarity=0.446  Sum_probs=95.4

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ++++++||+++||+|||||||+++|++.             ..|+.++|+++|+|++.....+   .             
T Consensus         8 ~~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~---~-------------   71 (409)
T CHL00071          8 RKKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEY---E-------------   71 (409)
T ss_pred             CCCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEE---c-------------
Confidence            3678899999999999999999999853             2356788999999998755221   0             


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH----
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL----  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il----  155 (182)
                                   +        ..++++|+|||||.+|..++.+++..+|++++||||.+| +..||++++..+..    
T Consensus        72 -------------~--------~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g-~~~qt~~~~~~~~~~g~~  129 (409)
T CHL00071         72 -------------T--------ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADG-PMPQTKEHILLAKQVGVP  129 (409)
T ss_pred             -------------c--------CCeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCC
Confidence                         1        127899999999999999999999999999999999999 99999996654321    


Q ss_pred             -HHhHhccchhhh
Q psy1174         156 -MATMLNGAAVMD  167 (182)
Q Consensus       156 -~~~~~nk~d~~~  167 (182)
                       ...++||+|..+
T Consensus       130 ~iIvvvNK~D~~~  142 (409)
T CHL00071        130 NIVVFLNKEDQVD  142 (409)
T ss_pred             EEEEEEEccCCCC
Confidence             124699999875

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

Probab=99.87  E-value=5.2e-22  Score=159.05  Aligned_cols=146  Identities=60%  Similarity=0.899  Sum_probs=106.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      +||+++||+|||||||+++|.+...++.+.|.++|+|+..+++.+...+.++..+..|.+|.....    ....+...+.
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~   76 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKED----SPECECPGCG   76 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccc----cccccccccC
Confidence            479999999999999999999887788889999999999998877665555545555544432211    1111111111


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH-----HHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI-----LMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i-----l~~~~~nk~d~~~  167 (182)
                      ...+..++++|+|||||.+|..++..++..+|++++|||+.++.+..++.+++..+.     ....++||+|+.+
T Consensus        77 ~~~~~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~  151 (203)
T cd01888          77 GETKLVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVK  151 (203)
T ss_pred             CccccccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccC
Confidence            112234789999999999999999999999999999999998536677777553321     1235799999875

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.86  E-value=4e-22  Score=174.65  Aligned_cols=116  Identities=34%  Similarity=0.463  Sum_probs=94.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      +++++||+++||+|||||||+++|++.             ..++.++|+++|+|++.....  +                
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~--~----------------   70 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVE--Y----------------   70 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEE--E----------------
Confidence            578899999999999999999999843             346778999999999875521  1                


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH----H
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL----M  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il----~  156 (182)
                                 .        ..+++++|+|||||++|..++..++..+|+++||||+.+| +..||++++..+..    .
T Consensus        71 -----------~--------~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g-~~~qt~e~l~~~~~~gi~~  130 (394)
T TIGR00485        71 -----------E--------TENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDG-PMPQTREHILLARQVGVPY  130 (394)
T ss_pred             -----------c--------CCCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCCE
Confidence                       0        1127899999999999999999999999999999999999 99999995544311    1


Q ss_pred             H-hHhccchhhh
Q psy1174         157 A-TMLNGAAVMD  167 (182)
Q Consensus       157 ~-~~~nk~d~~~  167 (182)
                      . .++||+|..+
T Consensus       131 iIvvvNK~Dl~~  142 (394)
T TIGR00485       131 IVVFLNKCDMVD  142 (394)
T ss_pred             EEEEEEecccCC
Confidence            1 3589999874

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.86  E-value=4.4e-22  Score=177.04  Aligned_cols=114  Identities=24%  Similarity=0.316  Sum_probs=91.5

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHh---cC-------------------------CccchhhHhhhceeeeecccccee
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAIS---GV-------------------------QTVRFKNELERNITIKLGYANAKI   64 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~---g~-------------------------~~~~~~~e~~~g~t~~~~~~~~~~   64 (182)
                      .+++++||+++||+|||||||+++|+   |.                         ..|+.++|++||+|++..+..+  
T Consensus         3 ~~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~--   80 (446)
T PTZ00141          3 KEKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKF--   80 (446)
T ss_pred             CCCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEE--
Confidence            45788999999999999999999997   22                         1345678999999998866321  


Q ss_pred             eecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcc--
Q psy1174          65 YKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAK--  142 (182)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~--  142 (182)
                                                 .+.        .++++|||||||.+|..+++.+++.+|+|+|||||.+| +  
T Consensus        81 ---------------------------~~~--------~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G-~~e  124 (446)
T PTZ00141         81 ---------------------------ETP--------KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAG-EFE  124 (446)
T ss_pred             ---------------------------ccC--------CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCC-cee
Confidence                                       112        27899999999999999999999999999999999998 5  


Q ss_pred             -----cccccccchhhHH-----HHhHhccch
Q psy1174         143 -----TPEIVDCPGHDIL-----MATMLNGAA  164 (182)
Q Consensus       143 -----~~qt~e~l~~~il-----~~~~~nk~d  164 (182)
                           .+||++|+..+..     ...++||+|
T Consensus       125 ~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD  156 (446)
T PTZ00141        125 AGISKDGQTREHALLAFTLGVKQMIVCINKMD  156 (446)
T ss_pred             cccCCCccHHHHHHHHHHcCCCeEEEEEEccc
Confidence                 5899995543321     125699999

>PLN03126 Elongation factor Tu; Provisional

Probab=99.86  E-value=4.9e-22  Score=177.92  Aligned_cols=116  Identities=32%  Similarity=0.453  Sum_probs=94.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      +++++||+++||+|||||||+++|++.             ..|+.++|+++|+|++..+..+.                 
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~-----------------  140 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYE-----------------  140 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEe-----------------
Confidence            578899999999999999999999841             23456789999999988663211                 


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----  155 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----  155 (182)
                                  +.        .++++|||||||.+|.+++..|+..+|+++|||||.+| +.+||++++..+..     
T Consensus       141 ------------~~--------~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G-~~~qt~e~~~~~~~~gi~~  199 (478)
T PLN03126        141 ------------TE--------NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADG-PMPQTKEHILLAKQVGVPN  199 (478)
T ss_pred             ------------cC--------CcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCCe
Confidence                        11        27899999999999999999999999999999999999 99999996654322     


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|..+
T Consensus       200 iIvvvNK~Dl~~  211 (478)
T PLN03126        200 MVVFLNKQDQVD  211 (478)
T ss_pred             EEEEEecccccC
Confidence            124699999875

>KOG0462|consensus

Probab=99.86  E-value=8.9e-23  Score=181.32  Aligned_cols=118  Identities=26%  Similarity=0.275  Sum_probs=93.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cCC---------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GVQ---------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGR   82 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~~---------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (182)
                      ...+|++||.|+|||||||.++|+   |..         .|+.+-|+|||+|++...+.+.. +.               
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify-~~---------------  121 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFY-KD---------------  121 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEE-Ec---------------
Confidence            457899999999999999999998   422         34667899999999987765443 11               


Q ss_pred             CCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHh
Q psy1174          83 SNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMAT  158 (182)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~  158 (182)
                                        ...+.+|+||||||.||..++.+.+..+|+|||||||.+| ++.||...+..+    +...-
T Consensus       122 ------------------~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qG-vqAQT~anf~lAfe~~L~iIp  182 (650)
T KOG0462|consen  122 ------------------GQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQG-VQAQTVANFYLAFEAGLAIIP  182 (650)
T ss_pred             ------------------CCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcC-chHHHHHHHHHHHHcCCeEEE
Confidence                              0127899999999999999999999999999999999999 999998733211    11224


Q ss_pred             Hhccchhhh
Q psy1174         159 MLNGAAVMD  167 (182)
Q Consensus       159 ~~nk~d~~~  167 (182)
                      .+||+|+..
T Consensus       183 VlNKIDlp~  191 (650)
T KOG0462|consen  183 VLNKIDLPS  191 (650)
T ss_pred             eeeccCCCC
Confidence            599999874

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.86  E-value=1.4e-22  Score=187.60  Aligned_cols=119  Identities=20%  Similarity=0.271  Sum_probs=101.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACY   78 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~   78 (182)
                      ....|||+|+||+|||||||.++|+   |.            ..|..+.|++||+|+....+++..              
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~--------------   72 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFW--------------   72 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEE--------------
Confidence            4578999999999999999999997   22            245778999999999987754332              


Q ss_pred             ccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----H
Q psy1174          79 ISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----I  154 (182)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----i  154 (182)
                                     .+       .++||+||||||.||..++.++++.+|+|++||||.+| +++||+.+++++    +
T Consensus        73 ---------------~~-------~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveG-V~~QTEtv~rqa~~~~v  129 (697)
T COG0480          73 ---------------KG-------DYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEG-VEPQTETVWRQADKYGV  129 (697)
T ss_pred             ---------------cC-------ceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCC-eeecHHHHHHHHhhcCC
Confidence                           21       28999999999999999999999999999999999999 999999988776    5


Q ss_pred             HHHhHhccchhhhHH
Q psy1174         155 LMATMLNGAAVMDAA  169 (182)
Q Consensus       155 l~~~~~nk~d~~~~~  169 (182)
                      ....|+||.|....+
T Consensus       130 p~i~fiNKmDR~~a~  144 (697)
T COG0480         130 PRILFVNKMDRLGAD  144 (697)
T ss_pred             CeEEEEECccccccC
Confidence            677999999976533

>PRK12735 elongation factor Tu; Reviewed

Probab=99.86  E-value=8.7e-22  Score=172.68  Aligned_cols=116  Identities=34%  Similarity=0.465  Sum_probs=93.6

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      +++++||+++||+|||||||+++|++.             ..++.++|+++|+|++.....+                  
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~------------------   70 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEY------------------   70 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEE------------------
Confidence            578899999999999999999999852             2456788999999998755210                  


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH----H
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL----M  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il----~  156 (182)
                                 .        ....+++|+|||||.+|..++..++..+|++++|||+.+| +..|+++++..+..    .
T Consensus        71 -----------~--------~~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g-~~~qt~e~l~~~~~~gi~~  130 (396)
T PRK12735         71 -----------E--------TANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADG-PMPQTREHILLARQVGVPY  130 (396)
T ss_pred             -----------c--------CCCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCC-CchhHHHHHHHHHHcCCCe
Confidence                       0        1126899999999999999999999999999999999999 89999996644321    1


Q ss_pred             H-hHhccchhhh
Q psy1174         157 A-TMLNGAAVMD  167 (182)
Q Consensus       157 ~-~~~nk~d~~~  167 (182)
                      . .++||+|..+
T Consensus       131 iivvvNK~Dl~~  142 (396)
T PRK12735        131 IVVFLNKCDMVD  142 (396)
T ss_pred             EEEEEEecCCcc
Confidence            2 3589999874

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.86  E-value=2.8e-22  Score=163.53  Aligned_cols=121  Identities=17%  Similarity=0.211  Sum_probs=91.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcC---C----------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV---Q----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSN   84 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~---~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (182)
                      |||+++||++||||||+++|+..   .          .|..+.|++||+|++.+...+.. ...+             ..
T Consensus         1 RNvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~-~~~~-------------~~   66 (222)
T cd01885           1 RNICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYF-EYEE-------------ED   66 (222)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEE-ecCc-------------cc
Confidence            68999999999999999999722   1          24567899999998876533221 1000             00


Q ss_pred             CCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----HHHhHh
Q psy1174          85 KDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----LMATML  160 (182)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~~~~~  160 (182)
                           ..        ....++++++|||||.+|..++..+++.+|++++|||+.+| +..|+++++.++.    ....++
T Consensus        67 -----~~--------~~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g-~~~~t~~~l~~~~~~~~p~ilvi  132 (222)
T cd01885          67 -----KA--------DGNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEG-VCVQTETVLRQALKERVKPVLVI  132 (222)
T ss_pred             -----cc--------CCCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCC-CCHHHHHHHHHHHHcCCCEEEEE
Confidence                 00        01127899999999999999999999999999999999999 8999988776542    345779


Q ss_pred             ccchhh
Q psy1174         161 NGAAVM  166 (182)
Q Consensus       161 nk~d~~  166 (182)
                      ||+|..
T Consensus       133 NKiD~~  138 (222)
T cd01885         133 NKIDRL  138 (222)
T ss_pred             ECCCcc
Confidence            999965

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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.86  E-value=1.1e-21  Score=174.57  Aligned_cols=117  Identities=24%  Similarity=0.304  Sum_probs=90.7

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHh---cCC-------------------------ccchhhHhhhceeeeecccccee
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAIS---GVQ-------------------------TVRFKNELERNITIKLGYANAKI   64 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~---g~~-------------------------~~~~~~e~~~g~t~~~~~~~~~~   64 (182)
                      .+++++||+++||+|||||||+++|+   |..                         .|..++|++||+|++..+..+. 
T Consensus         3 ~~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~-   81 (447)
T PLN00043          3 KEKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFE-   81 (447)
T ss_pred             CCCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEec-
Confidence            36789999999999999999999997   311                         2445788999999988653211 


Q ss_pred             eecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccc-
Q psy1174          65 YKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKT-  143 (182)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~-  143 (182)
                                                          ...+.+++||||||.+|..+|..|++.+|+|||||||.+|.++ 
T Consensus        82 ------------------------------------~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~  125 (447)
T PLN00043         82 ------------------------------------TTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEA  125 (447)
T ss_pred             ------------------------------------CCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceec
Confidence                                                1228899999999999999999999999999999999997433 


Q ss_pred             -----ccccccchhh----H-HHHhHhccchhh
Q psy1174         144 -----PEIVDCPGHD----I-LMATMLNGAAVM  166 (182)
Q Consensus       144 -----~qt~e~l~~~----i-l~~~~~nk~d~~  166 (182)
                           +||++++..+    + ....++||+|..
T Consensus       126 g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~  158 (447)
T PLN00043        126 GISKDGQTREHALLAFTLGVKQMICCCNKMDAT  158 (447)
T ss_pred             ccCCCchHHHHHHHHHHcCCCcEEEEEEcccCC
Confidence                 7999944321    1 012458999965

>PRK00049 elongation factor Tu; Reviewed

Probab=99.85  E-value=1.6e-21  Score=171.04  Aligned_cols=116  Identities=34%  Similarity=0.479  Sum_probs=94.3

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      .++++||+++||+|||||||+++|++.             ..++.++|++||+|++.....+.                 
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~-----------------   71 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYE-----------------   71 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEc-----------------
Confidence            578899999999999999999999852             23567899999999988653210                 


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH----H
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL----M  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il----~  156 (182)
                                  +        ..++++|||||||.+|..++..++..+|++++|||+.+| +..|+++++..+..    .
T Consensus        72 ------------~--------~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g-~~~qt~~~~~~~~~~g~p~  130 (396)
T PRK00049         72 ------------T--------EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADG-PMPQTREHILLARQVGVPY  130 (396)
T ss_pred             ------------C--------CCeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCC-CchHHHHHHHHHHHcCCCE
Confidence                        1        127899999999999999999999999999999999999 99999996654321    1


Q ss_pred             H-hHhccchhhh
Q psy1174         157 A-TMLNGAAVMD  167 (182)
Q Consensus       157 ~-~~~nk~d~~~  167 (182)
                      . .++||+|.++
T Consensus       131 iiVvvNK~D~~~  142 (396)
T PRK00049        131 IVVFLNKCDMVD  142 (396)
T ss_pred             EEEEEeecCCcc
Confidence            1 3589999874

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.85  E-value=4.1e-21  Score=168.93  Aligned_cols=142  Identities=42%  Similarity=0.722  Sum_probs=102.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      +++..+|+++||+|||||||+++|.+...++.++|.+||+|++++++.+..+.+.  .+..|.+|.....       +..
T Consensus         1 ~~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~--~~~~~~~~~~~~~-------~~~   71 (406)
T TIGR03680         1 RQPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCP--ECDGPECYTTEPV-------CPN   71 (406)
T ss_pred             CCceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEeccccccccccc--ccCcccccccccc-------ccc
Confidence            4678899999999999999999999887888899999999999998765543221  1111112211100       000


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcc-cccccccchhhHH-----HHhHhccchhhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAK-TPEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~-~~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      .+  ......+.++++|||||.+|..++..+++.+|++++|||+.+| . ..|+++++..+..     ...++||+|+.+
T Consensus        72 ~~--~~~~~~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g-~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~  148 (406)
T TIGR03680        72 CG--SETELLRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEP-CPQPQTKEHLMALEIIGIKNIVIVQNKIDLVS  148 (406)
T ss_pred             cc--cccccccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCC-ccccchHHHHHHHHHcCCCeEEEEEEccccCC
Confidence            00  0011237899999999999999999999999999999999998 6 8899985543211     124599999864

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

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.85  E-value=8.6e-22  Score=186.61  Aligned_cols=131  Identities=22%  Similarity=0.248  Sum_probs=97.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCC-------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQ-------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~-------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      ...++||+|+||+|||||||+++|+...             .|..++|++||+|+..+...+.. ...      |.+.  
T Consensus        16 ~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~-~~~------~~~~--   86 (843)
T PLN00116         16 KHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYY-EMT------DESL--   86 (843)
T ss_pred             ccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEe-ecc------cccc--
Confidence            3567899999999999999999998221             45778999999999876643221 000      0000  


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----HH
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----LM  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~  156 (182)
                          .+  +    .+  ......+.+|+||||||.+|..++.+|++.+|+||+||||.+| ++.||+.+++++.    ..
T Consensus        87 ----~~--~----~~--~~~~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~G-v~~~t~~~~~~~~~~~~p~  153 (843)
T PLN00116         87 ----KD--F----KG--ERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEG-VCVQTETVLRQALGERIRP  153 (843)
T ss_pred             ----cc--c----cc--ccCCCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCC-CcccHHHHHHHHHHCCCCE
Confidence                00  0    00  0011237899999999999999999999999999999999999 9999999887653    34


Q ss_pred             HhHhccchhh
Q psy1174         157 ATMLNGAAVM  166 (182)
Q Consensus       157 ~~~~nk~d~~  166 (182)
                      +.++||+|..
T Consensus       154 i~~iNK~D~~  163 (843)
T PLN00116        154 VLTVNKMDRC  163 (843)
T ss_pred             EEEEECCccc
Confidence            5889999976

>KOG0458|consensus

Probab=99.84  E-value=2.6e-21  Score=172.94  Aligned_cols=116  Identities=23%  Similarity=0.361  Sum_probs=93.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh---cCC-------------------------ccchhhHhhhceeeeeccccceee
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS---GVQ-------------------------TVRFKNELERNITIKLGYANAKIY   65 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~---g~~-------------------------~~~~~~e~~~g~t~~~~~~~~~~~   65 (182)
                      .+++++.+++||+|+|||||+++|+   |..                         .|..++|++||+|.+.+.+++.  
T Consensus       174 ~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fe--  251 (603)
T KOG0458|consen  174 PKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFE--  251 (603)
T ss_pred             CccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEe--
Confidence            4577899999999999999999997   332                         2344677888888777664421  


Q ss_pred             ecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----
Q psy1174          66 KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----  141 (182)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----  141 (182)
                                                         +..+.++++|+|||.+|..+|+.|+.+||+|+|||||+.|.    
T Consensus       252 -----------------------------------s~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~g  296 (603)
T KOG0458|consen  252 -----------------------------------SKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESG  296 (603)
T ss_pred             -----------------------------------cCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhc
Confidence                                               22378999999999999999999999999999999999875    


Q ss_pred             --ccccccccchhhHHHH--------hHhccchhhhHH
Q psy1174         142 --KTPEIVDCPGHDILMA--------TMLNGAAVMDAA  169 (182)
Q Consensus       142 --~~~qt~e~l~~~il~~--------~~~nk~d~~~~~  169 (182)
                        +.+||+|   |++++.        ..+||.|.+++.
T Consensus       297 fd~~gQtrE---ha~llr~Lgi~qlivaiNKmD~V~Ws  331 (603)
T KOG0458|consen  297 FDPGGQTRE---HALLLRSLGISQLIVAINKMDLVSWS  331 (603)
T ss_pred             cCCCCchHH---HHHHHHHcCcceEEEEeecccccCcc
Confidence              6779999   887765        449999988643

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.84  E-value=3.2e-21  Score=169.65  Aligned_cols=112  Identities=25%  Similarity=0.293  Sum_probs=88.2

Q ss_pred             cceEEECCCCCChHHHHhHHh---cCC---------------------------ccchhhHhhhceeeeeccccceeeec
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS---GVQ---------------------------TVRFKNELERNITIKLGYANAKIYKC   67 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~---g~~---------------------------~~~~~~e~~~g~t~~~~~~~~~~~~~   67 (182)
                      ++|+++||+|||||||+++|+   |..                           .|+.++|++||+|++..+..+.    
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~----   76 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFS----   76 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEc----
Confidence            479999999999999999996   211                           2455678888888887664311    


Q ss_pred             CCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc
Q psy1174          68 DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV  147 (182)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~  147 (182)
                                               +.        +++++|+|||||.+|.+++..++..+|+||+||||.+| +..||+
T Consensus        77 -------------------------~~--------~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G-~~~qt~  122 (406)
T TIGR02034        77 -------------------------TD--------KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKG-VLEQTR  122 (406)
T ss_pred             -------------------------cC--------CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCC-CccccH
Confidence                                     12        27899999999999999999999999999999999999 999999


Q ss_pred             ccchhhHH-----HHhHhccchhhh
Q psy1174         148 DCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       148 e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      +++..+..     ...++||+|..+
T Consensus       123 ~~~~~~~~~~~~~iivviNK~D~~~  147 (406)
T TIGR02034       123 RHSYIASLLGIRHVVLAVNKMDLVD  147 (406)
T ss_pred             HHHHHHHHcCCCcEEEEEEeccccc
Confidence            85533211     224699999764

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).

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.84  E-value=1.2e-21  Score=171.64  Aligned_cols=115  Identities=24%  Similarity=0.256  Sum_probs=93.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC---c----------cchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ---T----------VRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~---~----------~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      ++.+||+||.|+|||||||+++|+.+.   .          |...-|+|||+|+-...+.                    
T Consensus         3 ~~iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTa--------------------   62 (603)
T COG1217           3 EDIRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTA--------------------   62 (603)
T ss_pred             cccceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccce--------------------
Confidence            467999999999999999999998432   1          2335689999998654432                    


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHH
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMA  157 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~  157 (182)
                               ..|++        ++||++|||||.+|-.++.+.++-.|+|+|+|||.+| +.+||+.+++-+    +...
T Consensus        63 ---------v~~~~--------~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EG-pMPQTrFVlkKAl~~gL~PI  124 (603)
T COG1217          63 ---------VNYNG--------TRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEG-PMPQTRFVLKKALALGLKPI  124 (603)
T ss_pred             ---------eecCC--------eEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccC-CCCchhhhHHHHHHcCCCcE
Confidence                     22445        8999999999999999999999999999999999999 999999977543    2234


Q ss_pred             hHhccchhhh
Q psy1174         158 TMLNGAAVMD  167 (182)
Q Consensus       158 ~~~nk~d~~~  167 (182)
                      ..+||+|-.+
T Consensus       125 VVvNKiDrp~  134 (603)
T COG1217         125 VVINKIDRPD  134 (603)
T ss_pred             EEEeCCCCCC
Confidence            6699999765

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.84  E-value=7.3e-21  Score=170.39  Aligned_cols=116  Identities=25%  Similarity=0.292  Sum_probs=91.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh---cCC---------------------------ccchhhHhhhceeeeeccccce
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS---GVQ---------------------------TVRFKNELERNITIKLGYANAK   63 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~---g~~---------------------------~~~~~~e~~~g~t~~~~~~~~~   63 (182)
                      .++.++|+++||+|||||||+++|+   |..                           .|+.++|++||+|++..+..+.
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            4677899999999999999999997   211                           1345678888888887653211


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccc
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKT  143 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~  143 (182)
                                                   +.        .++++|||||||.+|..++..++..+|+|+|||||.+| +.
T Consensus       104 -----------------------------~~--------~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G-~~  145 (474)
T PRK05124        104 -----------------------------TE--------KRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKG-VL  145 (474)
T ss_pred             -----------------------------cC--------CcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCC-cc
Confidence                                         11        27899999999999999999999999999999999999 99


Q ss_pred             ccccccchhhHH-----HHhHhccchhhh
Q psy1174         144 PEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       144 ~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      .||++++..+..     ...++||+|..+
T Consensus       146 ~qt~~~~~l~~~lg~~~iIvvvNKiD~~~  174 (474)
T PRK05124        146 DQTRRHSFIATLLGIKHLVVAVNKMDLVD  174 (474)
T ss_pred             ccchHHHHHHHHhCCCceEEEEEeecccc
Confidence            999985432211     124699999773

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.83  E-value=7.1e-21  Score=168.04  Aligned_cols=118  Identities=30%  Similarity=0.440  Sum_probs=93.6

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHh---cCC-------------------------ccchhhHhhhceeeeeccccce
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAIS---GVQ-------------------------TVRFKNELERNITIKLGYANAK   63 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~---g~~-------------------------~~~~~~e~~~g~t~~~~~~~~~   63 (182)
                      |++++++||+++||+|||||||+++|+   |..                         .|+.++|+++|+|++..+..+.
T Consensus         1 ~~~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~   80 (425)
T PRK12317          1 AKEKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFE   80 (425)
T ss_pred             CCCCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEe
Confidence            467889999999999999999999998   221                         2455778889999888764321


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCC--Cc
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN--AA  141 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~--g~  141 (182)
                                                   +.        .++++|+|||||.+|..++..+++.+|++|+|||+.+  | 
T Consensus        81 -----------------------------~~--------~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~-  122 (425)
T PRK12317         81 -----------------------------TD--------KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGG-  122 (425)
T ss_pred             -----------------------------cC--------CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCC-
Confidence                                         11        2789999999999999999999999999999999999  8 


Q ss_pred             ccccccccchhhH-----HHHhHhccchhhh
Q psy1174         142 KTPEIVDCPGHDI-----LMATMLNGAAVMD  167 (182)
Q Consensus       142 ~~~qt~e~l~~~i-----l~~~~~nk~d~~~  167 (182)
                      +..|+++++..+.     ....++||+|+.+
T Consensus       123 ~~~~~~~~~~~~~~~~~~~iivviNK~Dl~~  153 (425)
T PRK12317        123 VMPQTREHVFLARTLGINQLIVAINKMDAVN  153 (425)
T ss_pred             CCcchHHHHHHHHHcCCCeEEEEEEcccccc
Confidence            8889988543321     1234689999864

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

Probab=99.83  E-value=2.9e-21  Score=161.74  Aligned_cols=111  Identities=21%  Similarity=0.265  Sum_probs=90.2

Q ss_pred             ceEEECCCCCChHHHHhHHh---cCC------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS---GVQ------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~---g~~------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      ||+++||+|||||||+++|+   |..            .++.+.|++||+|++.....+.                    
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~--------------------   60 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCF--------------------   60 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEE--------------------
Confidence            79999999999999999997   321            2455778889999887764322                    


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                               |.+        ++++++|||||.+|..++..+++.+|++|+|||+.+| ++.++++++..+    +....+
T Consensus        61 ---------~~~--------~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g-~~~~t~~~~~~~~~~~~p~ivv  122 (270)
T cd01886          61 ---------WKD--------HRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAG-VEPQTETVWRQADRYNVPRIAF  122 (270)
T ss_pred             ---------ECC--------EEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCC-CCHHHHHHHHHHHHcCCCEEEE
Confidence                     222        8899999999999999999999999999999999999 888888766543    234477


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|...
T Consensus       123 iNK~D~~~  130 (270)
T cd01886         123 VNKMDRTG  130 (270)
T ss_pred             EECCCCCC
Confidence            99999763

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

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.83  E-value=1.4e-20  Score=173.06  Aligned_cols=113  Identities=35%  Similarity=0.564  Sum_probs=94.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++||+|||||||+++|+|...+++++|.++|+|++.+++.+..                                  
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~----------------------------------   47 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQ----------------------------------   47 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEec----------------------------------
Confidence            5899999999999999999998888889999999999998753211                                  


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----HHhHhccchhhhH
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----MATMLNGAAVMDA  168 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~~~~~nk~d~~~~  168 (182)
                        .++..++|+|||||++|.++|..++..+|++++|||+.+| +.+||++++..+..     ....+||+|+.+.
T Consensus        48 --~~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg-~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~  119 (614)
T PRK10512         48 --PDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDG-VMAQTREHLAILQLTGNPMLTVALTKADRVDE  119 (614)
T ss_pred             --CCCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCCeEEEEEECCccCCH
Confidence              0125789999999999999999999999999999999999 99999996643211     1256899998753

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.82  E-value=4.9e-21  Score=175.39  Aligned_cols=113  Identities=24%  Similarity=0.279  Sum_probs=92.4

Q ss_pred             CcceEEECCCCCChHHHHhHHh---cCC----------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS---GVQ----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~---g~~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      +|||+|+||+|||||||+++|+   |..          .|..+.|++||+|+......+.                    
T Consensus         1 iRNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~--------------------   60 (594)
T TIGR01394         1 IRNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIR--------------------   60 (594)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEE--------------------
Confidence            4799999999999999999998   322          2456789999999987654322                    


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                               |.+        ++++++|||||.+|..++.++++.+|+++|||||.+| ++.||++++..+    +....+
T Consensus        61 ---------~~~--------~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~~~ip~IVv  122 (594)
T TIGR01394        61 ---------YNG--------TKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEG-PMPQTRFVLKKALELGLKPIVV  122 (594)
T ss_pred             ---------ECC--------EEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHHCCCCEEEE
Confidence                     222        8899999999999999999999999999999999999 999999866543    233467


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|..+
T Consensus       123 iNKiD~~~  130 (594)
T TIGR01394       123 INKIDRPS  130 (594)
T ss_pred             EECCCCCC
Confidence            99999753

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.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.82  E-value=3e-21  Score=168.19  Aligned_cols=113  Identities=19%  Similarity=0.281  Sum_probs=95.1

Q ss_pred             CcceEEECCCCCChHHHHhHHh--c-C----------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS--G-V----------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPAC   77 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~--g-~----------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~   77 (182)
                      .++.+||.|+|+|||||.+.|+  | .                .+|.++.|++||+++..+...                
T Consensus        12 RRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMq----------------   75 (528)
T COG4108          12 RRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQ----------------   75 (528)
T ss_pred             hcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEE----------------
Confidence            4678999999999999999886  2 1                145788999999999887733                


Q ss_pred             cccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch----hh
Q psy1174          78 YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----HD  153 (182)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~~  153 (182)
                                   +++.+        +.+|++|||||+||+..+.+.+..+|.|++||||..| +.+||+..+.    ..
T Consensus        76 -------------F~Y~~--------~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKG-iE~qT~KLfeVcrlR~  133 (528)
T COG4108          76 -------------FDYAD--------CLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKG-IEPQTLKLFEVCRLRD  133 (528)
T ss_pred             -------------eccCC--------eEEeccCCCCccccchhHHHHHHhhheeeEEEecccC-ccHHHHHHHHHHhhcC
Confidence                         33344        8999999999999999999999999999999999999 9999987443    33


Q ss_pred             HHHHhHhccchhhh
Q psy1174         154 ILMATMLNGAAVMD  167 (182)
Q Consensus       154 il~~~~~nk~d~~~  167 (182)
                      ++.++|+||.|-..
T Consensus       134 iPI~TFiNKlDR~~  147 (528)
T COG4108         134 IPIFTFINKLDREG  147 (528)
T ss_pred             CceEEEeecccccc
Confidence            67789999999664

>PTZ00416 elongation factor 2; Provisional

Probab=99.82  E-value=1.2e-20  Score=178.80  Aligned_cols=124  Identities=23%  Similarity=0.258  Sum_probs=96.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc---CC----------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG---VQ----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g---~~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      ..++||+|+||+|||||||+++|+.   ..          .|+.+.|++||+|+..+...+.. ...             
T Consensus        17 ~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~-~~~-------------   82 (836)
T PTZ00416         17 DQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYY-EHD-------------   82 (836)
T ss_pred             cCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEe-ecc-------------
Confidence            4678999999999999999999983   21          45778999999999876543221 000             


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----HHH
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----LMA  157 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~~  157 (182)
                      ..             .......+.++|||||||.+|..++..+++.+|+||+||||.+| +..||+.+++++.    ..+
T Consensus        83 ~~-------------~~~~~~~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g-~~~~t~~~~~~~~~~~~p~i  148 (836)
T PTZ00416         83 LE-------------DGDDKQPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEG-VCVQTETVLRQALQERIRPV  148 (836)
T ss_pred             cc-------------cccCCCceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCC-cCccHHHHHHHHHHcCCCEE
Confidence            00             00001127899999999999999999999999999999999999 9999999776553    356


Q ss_pred             hHhccchhh
Q psy1174         158 TMLNGAAVM  166 (182)
Q Consensus       158 ~~~nk~d~~  166 (182)
                      .++||+|..
T Consensus       149 v~iNK~D~~  157 (836)
T PTZ00416        149 LFINKVDRA  157 (836)
T ss_pred             EEEEChhhh
Confidence            789999976

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

Probab=99.81  E-value=6.1e-20  Score=161.84  Aligned_cols=143  Identities=41%  Similarity=0.677  Sum_probs=100.4

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL   92 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (182)
                      ++++.+||+++||+|||||||+++|.+...++.++|.+||+|++.+++...+...  ..+..|..|......        
T Consensus         5 ~~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~--~~~~~~~~~~~~~~~--------   74 (411)
T PRK04000          5 KVQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKC--PDCEEPEAYTTEPKC--------   74 (411)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccc--cccCccccccccccc--------
Confidence            4578899999999999999999999988788889999999999998765443111  001111111110000        


Q ss_pred             CCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcc-cccccccchhhHH-----HHhHhccchhh
Q psy1174          93 RSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAK-TPEIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus        93 ~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~-~~qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                       ..+.......++++|+|||||.+|..++..++..+|++++|||+.+| . ..++.+++..+..     ...++||+|+.
T Consensus        75 -~~~~~~~~~~~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~-~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~  152 (411)
T PRK04000         75 -PNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEP-CPQPQTKEHLMALDIIGIKNIVIVQNKIDLV  152 (411)
T ss_pred             -cccccccccccEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCC-CCChhHHHHHHHHHHcCCCcEEEEEEeeccc
Confidence             00000011126899999999999999999999999999999999998 5 7788775543211     22447999986


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       153 ~  153 (411)
T PRK04000        153 S  153 (411)
T ss_pred             c
Confidence            5

>PRK00007 elongation factor G; Reviewed

Probab=99.81  E-value=2.6e-20  Score=173.45  Aligned_cols=115  Identities=21%  Similarity=0.271  Sum_probs=94.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ..++||+|+||+|||||||+++|+   |.            ..|+.+.|++||+|++.....+.                
T Consensus         8 ~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~----------------   71 (693)
T PRK00007          8 ERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCF----------------   71 (693)
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEE----------------
Confidence            457899999999999999999997   32            13466788999999988765422                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                   |.+        ++++|||||||.+|..++.+++..+|+||+||||.+| ++.||++++.++    +.
T Consensus        72 -------------~~~--------~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g-~~~qt~~~~~~~~~~~~p  129 (693)
T PRK00007         72 -------------WKD--------HRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGG-VEPQSETVWRQADKYKVP  129 (693)
T ss_pred             -------------ECC--------eEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCC-cchhhHHHHHHHHHcCCC
Confidence                         122        7899999999999999999999999999999999999 999999866543    23


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|..+
T Consensus       130 ~iv~vNK~D~~~  141 (693)
T PRK00007        130 RIAFVNKMDRTG  141 (693)
T ss_pred             EEEEEECCCCCC
Confidence            447799999764

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.81  E-value=4.9e-20  Score=157.19  Aligned_cols=114  Identities=25%  Similarity=0.300  Sum_probs=94.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC---C---------------------------ccchhhHhhhceeeeeccccce
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV---Q---------------------------TVRFKNELERNITIKLGYANAK   63 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~---~---------------------------~~~~~~e~~~g~t~~~~~~~~~   63 (182)
                      .+..+++..+|++|.|||||+++|+.-   .                           .|-.+.|+|+|+|++..|--  
T Consensus         3 ~k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRy--   80 (431)
T COG2895           3 HKSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRY--   80 (431)
T ss_pred             cccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeee--
Confidence            456789999999999999999999721   1                           12346799999999998731  


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccc
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKT  143 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~  143 (182)
                                                         +.+++++|.+.|||||+.|..+|.+|++-||.||++|||..| +.
T Consensus        81 -----------------------------------FsT~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~G-vl  124 (431)
T COG2895          81 -----------------------------------FSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKG-VL  124 (431)
T ss_pred             -----------------------------------cccccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchh-hH
Confidence                                               113448999999999999999999999999999999999999 99


Q ss_pred             ccccccchhhHHHHhH--------hccchhhhH
Q psy1174         144 PEIVDCPGHDILMATM--------LNGAAVMDA  168 (182)
Q Consensus       144 ~qt~e~l~~~il~~~~--------~nk~d~~~~  168 (182)
                      .||+.   |..++..|        +||+|++|-
T Consensus       125 ~QTrR---Hs~I~sLLGIrhvvvAVNKmDLvdy  154 (431)
T COG2895         125 EQTRR---HSFIASLLGIRHVVVAVNKMDLVDY  154 (431)
T ss_pred             HHhHH---HHHHHHHhCCcEEEEEEeeeccccc
Confidence            99999   66554433        999999873

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

Probab=99.81  E-value=7.8e-21  Score=166.97  Aligned_cols=119  Identities=24%  Similarity=0.291  Sum_probs=95.0

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHh---cCC---------ccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAIS---GVQ---------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~---g~~---------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      ..+.+||++||.|.|||||||.++|+   |..         .|.+.-|+|||+|++.....+. |+.++           
T Consensus         5 ~~~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~-Yk~~~-----------   72 (603)
T COG0481           5 PQKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLN-YKAKD-----------   72 (603)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEE-EEeCC-----------
Confidence            34568999999999999999999998   322         4566789999999998765433 22110           


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHH---
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMA---  157 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~---  157 (182)
                                          ...+.+++||||||.+|.-++.++++.+.+|||||||..| ++.||..   ...++.   
T Consensus        73 --------------------g~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQG-veAQTlA---N~YlAle~~  128 (603)
T COG0481          73 --------------------GETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQG-VEAQTLA---NVYLALENN  128 (603)
T ss_pred             --------------------CCEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccc-hHHHHHH---HHHHHHHcC
Confidence                                0228899999999999999999999999999999999999 9999976   444433   


Q ss_pred             ----hHhccchhhh
Q psy1174         158 ----TMLNGAAVMD  167 (182)
Q Consensus       158 ----~~~nk~d~~~  167 (182)
                          -.+||+|+..
T Consensus       129 LeIiPViNKIDLP~  142 (603)
T COG0481         129 LEIIPVLNKIDLPA  142 (603)
T ss_pred             cEEEEeeecccCCC
Confidence                3499999874

>KOG1145|consensus

Probab=99.80  E-value=2.8e-20  Score=165.61  Aligned_cols=112  Identities=23%  Similarity=0.386  Sum_probs=93.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +++.|.|.||+|||||||+++|.+...   ......|+|+.++...+.+.                              
T Consensus       152 RpPVVTiMGHVDHGKTTLLD~lRks~V---AA~E~GGITQhIGAF~V~~p------------------------------  198 (683)
T KOG1145|consen  152 RPPVVTIMGHVDHGKTTLLDALRKSSV---AAGEAGGITQHIGAFTVTLP------------------------------  198 (683)
T ss_pred             CCCeEEEeecccCChhhHHHHHhhCce---ehhhcCCccceeceEEEecC------------------------------
Confidence            456789999999999999999986432   12334889999988554441                              


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                            ++..++|+|||||..|..++.+|+..+|.++|||.|.+| +.+||.|.+.|+    .+.+..+||+|...
T Consensus       199 ------~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDG-VmpQT~EaIkhAk~A~VpiVvAinKiDkp~  267 (683)
T KOG1145|consen  199 ------SGKSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDG-VMPQTLEAIKHAKSANVPIVVAINKIDKPG  267 (683)
T ss_pred             ------CCCEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCC-ccHhHHHHHHHHHhcCCCEEEEEeccCCCC
Confidence                  127899999999999999999999999999999999999 999999999997    44556799999763

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.80  E-value=3.8e-20  Score=169.32  Aligned_cols=114  Identities=29%  Similarity=0.497  Sum_probs=94.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++||+|||||||+++|.+...+++++|.++|+|++.++..+..                             .   
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~-----------------------------~---   48 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPL-----------------------------P---   48 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEe-----------------------------C---
Confidence            36899999999999999999987777888899999999988754221                             1   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH-HHhHhccchhhhHH
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL-MATMLNGAAVMDAA  169 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il-~~~~~nk~d~~~~~  169 (182)
                           +..++|+|||||++|..++..++..+|++++|||+.+| +.+||++++..+    +. ...++||+|.++..
T Consensus        49 -----~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G-~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~~  119 (581)
T TIGR00475        49 -----DYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEG-VMTQTGEHLAVLDLLGIPHTIVVITKADRVNEE  119 (581)
T ss_pred             -----CEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCCeEEEEEECCCCCCHH
Confidence                 16799999999999999999999999999999999999 899999955322    11 33568999987644

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.80  E-value=9.4e-20  Score=146.50  Aligned_cols=111  Identities=25%  Similarity=0.297  Sum_probs=82.0

Q ss_pred             ceEEECCCCCChHHHHhHHhc---CCc-------------------------cchhhHhhhceeeeeccccceeeecCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG---VQT-------------------------VRFKNELERNITIKLGYANAKIYKCDNE   70 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g---~~~-------------------------~~~~~e~~~g~t~~~~~~~~~~~~~~~~   70 (182)
                      +|+++||+|||||||+++|+.   ...                         +..+.|+++|+|++.....         
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~---------   71 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRY---------   71 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeE---------
Confidence            589999999999999999973   221                         2345666677777665421         


Q ss_pred             CCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc
Q psy1174          71 KCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP  150 (182)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l  150 (182)
                                          +.+.+        ++++++|||||.+|...+..++..+|++|+|||+.+| +..++++++
T Consensus        72 --------------------~~~~~--------~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~-~~~~~~~~~  122 (208)
T cd04166          72 --------------------FSTPK--------RKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKG-VLEQTRRHS  122 (208)
T ss_pred             --------------------EecCC--------ceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCC-ccHhHHHHH
Confidence                                11222        7899999999999999999999999999999999998 777776533


Q ss_pred             hhh----HH-HHhHhccchhhh
Q psy1174         151 GHD----IL-MATMLNGAAVMD  167 (182)
Q Consensus       151 ~~~----il-~~~~~nk~d~~~  167 (182)
                      ...    .. ...++||+|...
T Consensus       123 ~~~~~~~~~~iIvviNK~D~~~  144 (208)
T cd04166         123 YILSLLGIRHVVVAVNKMDLVD  144 (208)
T ss_pred             HHHHHcCCCcEEEEEEchhccc
Confidence            221    11 223589999763

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.

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.80  E-value=8.8e-20  Score=168.37  Aligned_cols=116  Identities=23%  Similarity=0.269  Sum_probs=89.5

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc---CCc---------------------------cchhhHhhhceeeeeccccce
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG---VQT---------------------------VRFKNELERNITIKLGYANAK   63 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g---~~~---------------------------~~~~~e~~~g~t~~~~~~~~~   63 (182)
                      .++.++|+++||+|||||||+++|+.   ...                           ++.++|++||+|++.++..+.
T Consensus        21 ~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~  100 (632)
T PRK05506         21 RKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFA  100 (632)
T ss_pred             CCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEc
Confidence            45678899999999999999999982   211                           234567777887777653211


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccc
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKT  143 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~  143 (182)
                                                   +.        .++++|+|||||.+|.+++..++..+|+++||||+.+| +.
T Consensus       101 -----------------------------~~--------~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g-~~  142 (632)
T PRK05506        101 -----------------------------TP--------KRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKG-VL  142 (632)
T ss_pred             -----------------------------cC--------CceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCC-cc
Confidence                                         12        27899999999999999999999999999999999999 99


Q ss_pred             ccccccchhhHH-----HHhHhccchhhh
Q psy1174         144 PEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       144 ~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      .||++++..+..     ...++||+|..+
T Consensus       143 ~~t~e~~~~~~~~~~~~iivvvNK~D~~~  171 (632)
T PRK05506        143 TQTRRHSFIASLLGIRHVVLAVNKMDLVD  171 (632)
T ss_pred             ccCHHHHHHHHHhCCCeEEEEEEeccccc
Confidence            999985433211     124699999763

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

Probab=99.80  E-value=7.1e-20  Score=148.38  Aligned_cols=111  Identities=26%  Similarity=0.355  Sum_probs=83.5

Q ss_pred             ceEEECCCCCChHHHHhHHh---cCC-------------------------ccchhhHhhhceeeeeccccceeeecCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS---GVQ-------------------------TVRFKNELERNITIKLGYANAKIYKCDNE   70 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~---g~~-------------------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~   70 (182)
                      ||+++||+|||||||+++|+   |..                         .+..+.|++||+|++.....+.       
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~-------   73 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFE-------   73 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEe-------
Confidence            69999999999999999996   321                         2345667778887776553321       


Q ss_pred             CCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC------cccc
Q psy1174          71 KCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA------AKTP  144 (182)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g------~~~~  144 (182)
                                            +.+        ++++++|||||.+|...+..++..+|++|+|||+.++      +...
T Consensus        74 ----------------------~~~--------~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~  123 (219)
T cd01883          74 ----------------------TEK--------YRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGG  123 (219)
T ss_pred             ----------------------eCC--------eEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCcccccccccc
Confidence                                  122        7899999999999999999999999999999999984      1566


Q ss_pred             cccccchhh-----HHHHhHhccchhh
Q psy1174         145 EIVDCPGHD-----ILMATMLNGAAVM  166 (182)
Q Consensus       145 qt~e~l~~~-----il~~~~~nk~d~~  166 (182)
                      |+.+++...     .....++||+|..
T Consensus       124 ~~~~~~~~~~~~~~~~iiivvNK~Dl~  150 (219)
T cd01883         124 QTREHALLARTLGVKQLIVAVNKMDDV  150 (219)
T ss_pred             chHHHHHHHHHcCCCeEEEEEEccccc
Confidence            777644222     1123479999986

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

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

Probab=99.80  E-value=3.5e-20  Score=164.78  Aligned_cols=114  Identities=24%  Similarity=0.404  Sum_probs=92.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +++.|++.||+|||||||++.|.+...   ......|+|+.++...+.+...                            
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~V---a~~EaGGITQhIGA~~v~~~~~----------------------------   52 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNV---AAGEAGGITQHIGAYQVPLDVI----------------------------   52 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCcc---ccccCCceeeEeeeEEEEeccC----------------------------
Confidence            345689999999999999999986543   2334588999998754333000                            


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----HHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----LMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~~~~~nk~d~~~  167 (182)
                            ....++|||||||+.|...+.+|.+.+|.|+||||+++| +.+||.|.++|+-    +....+||+|..+
T Consensus        53 ------~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDG-v~pQTiEAI~hak~a~vP~iVAiNKiDk~~  121 (509)
T COG0532          53 ------KIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDG-VMPQTIEAINHAKAAGVPIVVAINKIDKPE  121 (509)
T ss_pred             ------CCceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCC-cchhHHHHHHHHHHCCCCEEEEEecccCCC
Confidence                  115799999999999999999999999999999999999 9999999999973    3346799999774

>PRK12739 elongation factor G; Reviewed

Probab=99.80  E-value=3.2e-20  Score=172.81  Aligned_cols=115  Identities=19%  Similarity=0.244  Sum_probs=94.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc---C------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG---V------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g---~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ..++||+|+||+|||||||+++|+.   .            ..|+.+.|++||+|++.....+.                
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~----------------   69 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCF----------------   69 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEE----------------
Confidence            4578999999999999999999962   1            23566888999999988775422                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                   |.+        ++++|+|||||.+|..++.+++..+|+||+|||+.+| ++.|+++++.++    +.
T Consensus        70 -------------~~~--------~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g-~~~qt~~i~~~~~~~~~p  127 (691)
T PRK12739         70 -------------WKG--------HRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSG-VEPQSETVWRQADKYGVP  127 (691)
T ss_pred             -------------ECC--------EEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCC-CCHHHHHHHHHHHHcCCC
Confidence                         222        8899999999999999999999999999999999999 999998866543    23


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|...
T Consensus       128 ~iv~iNK~D~~~  139 (691)
T PRK12739        128 RIVFVNKMDRIG  139 (691)
T ss_pred             EEEEEECCCCCC
Confidence            447799999774

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.79  E-value=4.2e-20  Score=172.94  Aligned_cols=118  Identities=19%  Similarity=0.259  Sum_probs=95.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cCC----------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GVQ----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      ..+|||+|+||+|||||||+++|+   |..          .|+.+.|++||+|+..+...+.. ..              
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~-~~--------------   82 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVH-EY--------------   82 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEE-Ee--------------
Confidence            467899999999999999999997   221          45678999999999887643221 00              


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHH
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMA  157 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~  157 (182)
                                  .      ...++++|||||||.+|..++.++++.+|+||+|||+.+| ++.||+.++.++    +...
T Consensus        83 ------------~------~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g-~~~~t~~~~~~~~~~~~~~i  143 (731)
T PRK07560         83 ------------E------GKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEG-VMPQTETVLRQALRERVKPV  143 (731)
T ss_pred             ------------c------CCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCC-CCccHHHHHHHHHHcCCCeE
Confidence                        0      0127899999999999999999999999999999999999 999999877653    2345


Q ss_pred             hHhccchhh
Q psy1174         158 TMLNGAAVM  166 (182)
Q Consensus       158 ~~~nk~d~~  166 (182)
                      .++||+|..
T Consensus       144 v~iNK~D~~  152 (731)
T PRK07560        144 LFINKVDRL  152 (731)
T ss_pred             EEEECchhh
Confidence            779999965

>cd04169 RF3 RF3 subfamily

Probab=99.79  E-value=1e-19  Score=152.08  Aligned_cols=113  Identities=17%  Similarity=0.196  Sum_probs=88.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhc---CC----------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG---VQ----------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPAC   77 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g---~~----------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~   77 (182)
                      .|||+++||+|+|||||+++|+.   ..                .+..+.|++||+++......+               
T Consensus         2 ~Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~---------------   66 (267)
T cd04169           2 RRTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQF---------------   66 (267)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEE---------------
Confidence            58999999999999999999972   11                234567888888877765332               


Q ss_pred             cccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----
Q psy1174          78 YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----  153 (182)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----  153 (182)
                                    .|.+        ++++++|||||.+|..++..+++.+|++|+|+|+..| +..+++..+...    
T Consensus        67 --------------~~~~--------~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g-~~~~~~~i~~~~~~~~  123 (267)
T cd04169          67 --------------EYRD--------CVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKG-VEPQTRKLFEVCRLRG  123 (267)
T ss_pred             --------------eeCC--------EEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCC-ccHHHHHHHHHHHhcC
Confidence                          1223        7899999999999999999999999999999999998 777776644332    


Q ss_pred             HHHHhHhccchhhh
Q psy1174         154 ILMATMLNGAAVMD  167 (182)
Q Consensus       154 il~~~~~nk~d~~~  167 (182)
                      +....++||+|...
T Consensus       124 ~P~iivvNK~D~~~  137 (267)
T cd04169         124 IPIITFINKLDREG  137 (267)
T ss_pred             CCEEEEEECCccCC
Confidence            33457799999753

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.78  E-value=1.8e-19  Score=147.01  Aligned_cols=136  Identities=21%  Similarity=0.249  Sum_probs=92.5

Q ss_pred             ceEEECCCCCChHHHHhHHhcC-----------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV-----------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDD   87 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~-----------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (182)
                      +|+++|++++|||||+++|...           ..+++++|.++|+|.......   +.++..+  .+.+|.......  
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~---~g~~~~~--~~~~~~~~~~~~--   73 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEI---LGFDSDG--EVVNYPDNHLSE--   73 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhh---cccCCCC--ceecCCCCcccc--
Confidence            4789999999999999999832           234788999999997543321   2222111  112222111110  


Q ss_pred             CCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccc--cCCeEEEEEEcCCCcccccccccchhh----HHHHhHhc
Q psy1174          88 SFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA--VMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLN  161 (182)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~--~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~n  161 (182)
                            .+....+...+.+++||||||.+|.+++..++.  .+|++++|||+..| +..++++++..+    +....++|
T Consensus        74 ------~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g-~~~~d~~~l~~l~~~~ip~ivvvN  146 (224)
T cd04165          74 ------SDIEICEKSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAG-IIGMTKEHLGLALALNIPVFVVVT  146 (224)
T ss_pred             ------ccceeeeeCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCCEEEEEE
Confidence                  000111223488999999999999999999985  89999999999999 889988865443    22346799


Q ss_pred             cchhhhH
Q psy1174         162 GAAVMDA  168 (182)
Q Consensus       162 k~d~~~~  168 (182)
                      |+|..++
T Consensus       147 K~D~~~~  153 (224)
T cd04165         147 KIDLAPA  153 (224)
T ss_pred             CccccCH
Confidence            9997653

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.78  E-value=1.1e-19  Score=149.41  Aligned_cols=110  Identities=24%  Similarity=0.260  Sum_probs=87.5

Q ss_pred             ceEEECCCCCChHHHHhHHhcC---------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV---------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~---------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      ||+++||+|+|||||+++|+..               ..++.+.|++||+|+......+.                    
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~--------------------   60 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQ--------------------   60 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEE--------------------
Confidence            6899999999999999999731               12445678888888877664322                    


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                               +.+        .+++++|||||.+|...+..+++.+|++++|||+.+| +..++++++...    +....+
T Consensus        61 ---------~~~--------~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g-~~~~~~~~~~~~~~~~~P~iiv  122 (237)
T cd04168          61 ---------WED--------TKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEG-VQAQTRILWRLLRKLNIPTIIF  122 (237)
T ss_pred             ---------ECC--------EEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCC-CCHHHHHHHHHHHHcCCCEEEE
Confidence                     122        7899999999999999999999999999999999999 888877755432    344578


Q ss_pred             hccchhh
Q psy1174         160 LNGAAVM  166 (182)
Q Consensus       160 ~nk~d~~  166 (182)
                      +||+|..
T Consensus       123 vNK~D~~  129 (237)
T cd04168         123 VNKIDRA  129 (237)
T ss_pred             EECcccc
Confidence            9999976

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.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.78  E-value=4.6e-19  Score=154.68  Aligned_cols=110  Identities=35%  Similarity=0.574  Sum_probs=95.5

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+..||++||||||+.+|.|...++.++|.+||+|++++++....                             .    
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~-----------------------------~----   48 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKL-----------------------------E----   48 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccC-----------------------------C----
Confidence            4789999999999999999999999999999999999999964221                             1    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHH--------hHhccchhhhHH
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMA--------TMLNGAAVMDAA  169 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~--------~~~nk~d~~~~~  169 (182)
                          .+.+.|||.|||++|.++|+.|+...|+|+||||+++| ++.||.|   |++.+-        ..++|+|..+++
T Consensus        49 ----d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deG-l~~qtgE---hL~iLdllgi~~giivltk~D~~d~~  119 (447)
T COG3276          49 ----DGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEG-LMAQTGE---HLLILDLLGIKNGIIVLTKADRVDEA  119 (447)
T ss_pred             ----CCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccC-cchhhHH---HHHHHHhcCCCceEEEEeccccccHH
Confidence                16799999999999999999999999999999999999 9999999   544433        338899988654

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.78  E-value=7.6e-19  Score=155.22  Aligned_cols=117  Identities=29%  Similarity=0.408  Sum_probs=88.9

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHh---cCC-------------------------ccchhhHhhhceeeeecccccee
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAIS---GVQ-------------------------TVRFKNELERNITIKLGYANAKI   64 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~---g~~-------------------------~~~~~~e~~~g~t~~~~~~~~~~   64 (182)
                      .+++++||+++||+|||||||+++|+   |..                         .++.++|+++|+|++..+..+. 
T Consensus         3 ~~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~-   81 (426)
T TIGR00483         3 KEKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFE-   81 (426)
T ss_pred             CCCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEc-
Confidence            46788999999999999999999997   322                         2345678889999888764321 


Q ss_pred             eecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc--c
Q psy1174          65 YKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA--K  142 (182)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~--~  142 (182)
                                                          ....+++|+|||||.+|..++..++..+|+++||||+.++.  .
T Consensus        82 ------------------------------------~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~  125 (426)
T TIGR00483        82 ------------------------------------TDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEV  125 (426)
T ss_pred             ------------------------------------cCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCccc
Confidence                                                11278999999999999999999999999999999999873  3


Q ss_pred             cccccccchhh-----HHHHhHhccchhh
Q psy1174         143 TPEIVDCPGHD-----ILMATMLNGAAVM  166 (182)
Q Consensus       143 ~~qt~e~l~~~-----il~~~~~nk~d~~  166 (182)
                      ..|+.+++..+     .....++||+|+.
T Consensus       126 ~~~t~~~~~~~~~~~~~~iIVviNK~Dl~  154 (426)
T TIGR00483       126 QPQTREHAFLARTLGINQLIVAINKMDSV  154 (426)
T ss_pred             CCchHHHHHHHHHcCCCeEEEEEEChhcc
Confidence            45666632111     0122468999986

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.

>KOG0469|consensus

Probab=99.77  E-value=6.7e-20  Score=162.11  Aligned_cols=132  Identities=22%  Similarity=0.225  Sum_probs=98.4

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHh---cC----------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAIS---GV----------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACY   78 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~---g~----------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~   78 (182)
                      ++.+.++|++||.|++||||||.++|.   |.          ..+..++|.+||+|++....++. |+......+     
T Consensus        14 ~k~~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~-~e~~~~dl~-----   87 (842)
T KOG0469|consen   14 DKKKNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLF-FEMSDDDLK-----   87 (842)
T ss_pred             ccccccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeeh-hhhhHhHHH-----
Confidence            345677899999999999999999997   22          24566899999999987653322 222111000     


Q ss_pred             ccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH---
Q psy1174          79 ISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL---  155 (182)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il---  155 (182)
                             ......        ......+|+||.|||.+|+.++..+++..|+|++|||+.+| ++.||+.+|++++.   
T Consensus        88 -------~~k~~~--------d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~G-vCVQTETVLrQA~~ERI  151 (842)
T KOG0469|consen   88 -------FIKQEG--------DGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSG-VCVQTETVLRQAIAERI  151 (842)
T ss_pred             -------HhcCCC--------CCcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCc-eEechHHHHHHHHHhhc
Confidence                   000011        11237899999999999999999999999999999999999 99999999988754   


Q ss_pred             -HHhHhccchh
Q psy1174         156 -MATMLNGAAV  165 (182)
Q Consensus       156 -~~~~~nk~d~  165 (182)
                       ...++||.|-
T Consensus       152 kPvlv~NK~DR  162 (842)
T KOG0469|consen  152 KPVLVMNKMDR  162 (842)
T ss_pred             cceEEeehhhH
Confidence             4477999773

>KOG0461|consensus

Probab=99.77  E-value=8.4e-19  Score=149.56  Aligned_cols=120  Identities=29%  Similarity=0.535  Sum_probs=95.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC----ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ----TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~----~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      .+.|++++||+|||||||..+|....    -|+++.+.+||+|.+++++.+.+.        .|+               
T Consensus         6 ~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~--------~pa---------------   62 (522)
T KOG0461|consen    6 SNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVL--------SPA---------------   62 (522)
T ss_pred             ceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecc--------ccc---------------
Confidence            45799999999999999999998322    357788899999999999876651        110               


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHH-------HhHhccch
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILM-------ATMLNGAA  164 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~-------~~~~nk~d  164 (182)
                           +-.+.+..++++||||||..++..++-|+...|.+++|||+..| .+.||.|||   ++.       +..+||+|
T Consensus        63 -----rLpq~e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG-~QtQtAEcL---iig~~~c~klvvvinkid  133 (522)
T KOG0461|consen   63 -----RLPQGEQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKG-KQTQTAECL---IIGELLCKKLVVVINKID  133 (522)
T ss_pred             -----ccCccccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcc-cccccchhh---hhhhhhccceEEEEeccc
Confidence                 00112337899999999999999999999999999999999999 999999944   332       24589998


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +-.
T Consensus       134 ~lp  136 (522)
T KOG0461|consen  134 VLP  136 (522)
T ss_pred             ccc
Confidence            653

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.77  E-value=2.6e-19  Score=162.05  Aligned_cols=115  Identities=17%  Similarity=0.222  Sum_probs=92.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cC----------------CccchhhHhhhceeeeeccccceeeecCCCCCCCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GV----------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRP   75 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~----------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~   75 (182)
                      ...+||+|+||+|||||||+++|+   |.                ..|..+.|++||+|+......+.            
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~------------   75 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFP------------   75 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEE------------
Confidence            357899999999999999999996   21                13456788899998877653221            


Q ss_pred             cccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh--
Q psy1174          76 ACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD--  153 (182)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~--  153 (182)
                                       |.+        ++++++|||||.+|...+..+++.+|++|+|||+.+| +..+++.++..+  
T Consensus        76 -----------------~~~--------~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~g-v~~~t~~l~~~~~~  129 (526)
T PRK00741         76 -----------------YRD--------CLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKG-VEPQTRKLMEVCRL  129 (526)
T ss_pred             -----------------ECC--------EEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCC-CCHHHHHHHHHHHh
Confidence                             222        7899999999999999999999999999999999999 888887765443  


Q ss_pred             --HHHHhHhccchhhh
Q psy1174         154 --ILMATMLNGAAVMD  167 (182)
Q Consensus       154 --il~~~~~nk~d~~~  167 (182)
                        +...+++||+|...
T Consensus       130 ~~iPiiv~iNK~D~~~  145 (526)
T PRK00741        130 RDTPIFTFINKLDRDG  145 (526)
T ss_pred             cCCCEEEEEECCcccc
Confidence              34557899999764

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.76  E-value=4.9e-19  Score=162.50  Aligned_cols=123  Identities=20%  Similarity=0.205  Sum_probs=93.4

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhc---CC---------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISG---VQ---------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g---~~---------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      +....+|||+|+||+|||||||+++|+.   ..         .++.+.|++||+|+......+.. ...           
T Consensus         2 ~~~~~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~-~~~-----------   69 (600)
T PRK05433          2 MDMKNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNY-KAK-----------   69 (600)
T ss_pred             CccccCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEE-Ecc-----------
Confidence            4445689999999999999999999972   21         34567899999999875533211 000           


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                          ....++++|+|||||.+|..++.++++.+|++|+|||+.+| ++.||.+.+..+    +.
T Consensus        70 --------------------dg~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~g-v~~qt~~~~~~~~~~~lp  128 (600)
T PRK05433         70 --------------------DGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQG-VEAQTLANVYLALENDLE  128 (600)
T ss_pred             --------------------CCCcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCC-CCHHHHHHHHHHHHCCCC
Confidence                                01127899999999999999999999999999999999999 888888744221    22


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|+..
T Consensus       129 iIvViNKiDl~~  140 (600)
T PRK05433        129 IIPVLNKIDLPA  140 (600)
T ss_pred             EEEEEECCCCCc
Confidence            346799999753

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.76  E-value=4.5e-19  Score=165.12  Aligned_cols=115  Identities=19%  Similarity=0.238  Sum_probs=92.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ..++||+|+||+|||||||+++|+   |.            ..|+.+.|+++|+|++.....+.                
T Consensus         8 ~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~----------------   71 (689)
T TIGR00484         8 NRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVF----------------   71 (689)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEE----------------
Confidence            457899999999999999999996   22            12456788999999988764322                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                   |.+        ++++++|||||.+|..++..+++.+|++|+|||+.+| +..|+++++.++    +.
T Consensus        72 -------------~~~--------~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g-~~~~~~~~~~~~~~~~~p  129 (689)
T TIGR00484        72 -------------WKG--------HRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGG-VQPQSETVWRQANRYEVP  129 (689)
T ss_pred             -------------ECC--------eEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCC-CChhHHHHHHHHHHcCCC
Confidence                         222        7899999999999999999999999999999999999 888888765432    23


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|..+
T Consensus       130 ~ivviNK~D~~~  141 (689)
T TIGR00484       130 RIAFVNKMDKTG  141 (689)
T ss_pred             EEEEEECCCCCC
Confidence            446799999764

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.

>TIGR00503 prfC peptide chain release factor 3

Probab=99.75  E-value=8.7e-19  Score=158.74  Aligned_cols=114  Identities=18%  Similarity=0.216  Sum_probs=91.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cC----------------CccchhhHhhhceeeeeccccceeeecCCCCCCCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GV----------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRP   75 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~----------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~   75 (182)
                      ...+||+|+||+|||||||+++|+   |.                ..|..+.|++||+|+......+             
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~-------------   75 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQF-------------   75 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEE-------------
Confidence            457899999999999999999985   21                1245678889999987765332             


Q ss_pred             cccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh--
Q psy1174          76 ACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD--  153 (182)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~--  153 (182)
                                      .|.+        ++++++|||||.+|...+..++..+|++|+|||+..| +..+++.++...  
T Consensus        76 ----------------~~~~--------~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~g-v~~~t~~l~~~~~~  130 (527)
T TIGR00503        76 ----------------PYRD--------CLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKG-VETRTRKLMEVTRL  130 (527)
T ss_pred             ----------------eeCC--------eEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCC-CCHHHHHHHHHHHh
Confidence                            1223        7899999999999999999999999999999999999 888887755432  


Q ss_pred             --HHHHhHhccchhh
Q psy1174         154 --ILMATMLNGAAVM  166 (182)
Q Consensus       154 --il~~~~~nk~d~~  166 (182)
                        +...+++||+|..
T Consensus       131 ~~~PiivviNKiD~~  145 (527)
T TIGR00503       131 RDTPIFTFMNKLDRD  145 (527)
T ss_pred             cCCCEEEEEECcccc
Confidence              3455789999975

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.74  E-value=2.1e-18  Score=136.35  Aligned_cols=126  Identities=26%  Similarity=0.440  Sum_probs=89.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcC----CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV----QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~----~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      +||+++|++|+|||||+++|++.    ..++...|.++|+|+...+..+.+...   +..            +       
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~---~~~------------~-------   58 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKP---KHL------------R-------   58 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEeccc---ccc------------c-------
Confidence            47999999999999999999862    335667788999999887755443100   000            0       


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                       ..........+++++|||||.+|...+..++..+|++++|+|+.+| ...++.+.+...    .....++||+|..+
T Consensus        59 -~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~-~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~  134 (192)
T cd01889          59 -ELINPGEENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKG-IQTQTAECLVIGEILCKKLIVVLNKIDLIP  134 (192)
T ss_pred             -ccccccccCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCC-ccHHHHHHHHHHHHcCCCEEEEEECcccCC
Confidence             0000011237899999999999999999999999999999999998 766665533211    22346699999763

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

>PRK10218 GTP-binding protein; Provisional

Probab=99.74  E-value=1.2e-18  Score=160.02  Aligned_cols=114  Identities=22%  Similarity=0.233  Sum_probs=90.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc---CC----------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG---VQ----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGR   82 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g---~~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (182)
                      .++||+|+||+|||||||+++|+.   ..          .|..+.|.++|+|+......+.                   
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~-------------------   64 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIK-------------------   64 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEe-------------------
Confidence            478999999999999999999983   21          2344567888998877653211                   


Q ss_pred             CCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHh
Q psy1174          83 SNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMAT  158 (182)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~  158 (182)
                                |.+        ++++++|||||.+|...+..+++.+|++|+|||+.+| ++.||+.++..+    +....
T Consensus        65 ----------~~~--------~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G-~~~qt~~~l~~a~~~gip~IV  125 (607)
T PRK10218         65 ----------WND--------YRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDG-PMPQTRFVTKKAFAYGLKPIV  125 (607)
T ss_pred             ----------cCC--------EEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccC-ccHHHHHHHHHHHHcCCCEEE
Confidence                      222        7899999999999999999999999999999999999 999998866443    22346


Q ss_pred             Hhccchhhh
Q psy1174         159 MLNGAAVMD  167 (182)
Q Consensus       159 ~~nk~d~~~  167 (182)
                      ++||+|..+
T Consensus       126 viNKiD~~~  134 (607)
T PRK10218        126 VINKVDRPG  134 (607)
T ss_pred             EEECcCCCC
Confidence            799999753

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.73  E-value=1.8e-18  Score=161.75  Aligned_cols=118  Identities=17%  Similarity=0.244  Sum_probs=93.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc---C----------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG---V----------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g---~----------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      ..++||+++||+|||||||+++|+.   .          ..+..+.|.+||+|+......... .               
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~-~---------------   80 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVH-E---------------   80 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEE-e---------------
Confidence            4578999999999999999999972   1          135567888899998876543211 0               


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHH
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMA  157 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~  157 (182)
                               ..+.+        ++++++|||||.+|..++..++..+|++|+|||+.+| +..++++++.++    +...
T Consensus        81 ---------~~~~~--------~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g-~~~~t~~~~~~~~~~~~p~i  142 (720)
T TIGR00490        81 ---------YEGNE--------YLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEG-VMPQTETVLRQALKENVKPV  142 (720)
T ss_pred             ---------ecCCc--------eEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCC-CCccHHHHHHHHHHcCCCEE
Confidence                     11222        7899999999999999999999999999999999999 899998866553    2334


Q ss_pred             hHhccchhh
Q psy1174         158 TMLNGAAVM  166 (182)
Q Consensus       158 ~~~nk~d~~  166 (182)
                      .++||+|..
T Consensus       143 vviNKiD~~  151 (720)
T TIGR00490       143 LFINKVDRL  151 (720)
T ss_pred             EEEEChhcc
Confidence            779999975

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.

>cd04167 Snu114p Snu114p subfamily

Probab=99.73  E-value=2.6e-18  Score=138.34  Aligned_cols=116  Identities=20%  Similarity=0.251  Sum_probs=84.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC----------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ----------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~----------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      |||+++||+|+|||||+++|+...                .++.+.|.++|+++......+.....              
T Consensus         1 rnv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~--------------   66 (213)
T cd04167           1 RNVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDS--------------   66 (213)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcC--------------
Confidence            589999999999999999998321                23456677888887665432211000              


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHH
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMA  157 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~  157 (182)
                                        ......++++|||||.+|...+..++..+|++++|+|+.++ ...++++++...    +...
T Consensus        67 ------------------~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~-~~~~~~~~~~~~~~~~~p~i  127 (213)
T cd04167          67 ------------------KGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEG-VTSNTERLIRHAILEGLPIV  127 (213)
T ss_pred             ------------------CCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCC-CCHHHHHHHHHHHHcCCCEE
Confidence                              01127899999999999999999999999999999999988 666665533332    2234


Q ss_pred             hHhccchhh
Q psy1174         158 TMLNGAAVM  166 (182)
Q Consensus       158 ~~~nk~d~~  166 (182)
                      .++||+|..
T Consensus       128 iviNK~D~~  136 (213)
T cd04167         128 LVINKIDRL  136 (213)
T ss_pred             EEEECcccC
Confidence            679999964

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.73  E-value=2.8e-18  Score=157.37  Aligned_cols=119  Identities=21%  Similarity=0.220  Sum_probs=90.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC---C---------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV---Q---------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~---~---------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      .+|||+++||+|||||||+++|+..   .         .++.+.|+++|+|+......+.. ...               
T Consensus         2 ~iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~-~~~---------------   65 (595)
T TIGR01393         2 NIRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNY-KAK---------------   65 (595)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEE-EcC---------------
Confidence            4789999999999999999999732   1         24557789999998875533221 000               


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                                .      ...++++|+|||||.+|...+.++++.+|++|+|+|+.+| ++.|+.+++..+    +....+
T Consensus        66 ----------~------g~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g-~~~qt~~~~~~~~~~~ipiIiV  128 (595)
T TIGR01393        66 ----------D------GETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQG-IEAQTLANVYLALENDLEIIPV  128 (595)
T ss_pred             ----------C------CCEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCC-CCHhHHHHHHHHHHcCCCEEEE
Confidence                      0      0126899999999999999999999999999999999999 888887744221    223467


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|+.+
T Consensus       129 iNKiDl~~  136 (595)
T TIGR01393       129 INKIDLPS  136 (595)
T ss_pred             EECcCCCc
Confidence            99999753

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.

>cd04171 SelB SelB subfamily

Probab=99.72  E-value=1.1e-17  Score=126.89  Aligned_cols=113  Identities=35%  Similarity=0.591  Sum_probs=84.7

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|++|+|||||+++|.+...+.+..+.++++|+...+....+                             .    
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~-----------------------------~----   48 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDL-----------------------------P----   48 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEe-----------------------------c----
Confidence            6899999999999999999976555555565677777766532211                             0    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----H-HHHhHhccchhhhH
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----I-LMATMLNGAAVMDA  168 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----i-l~~~~~nk~d~~~~  168 (182)
                         ....+.++||||+.+|...+..+++.+|++++|+|+.++ ...++.+.+...    . ....++||+|+...
T Consensus        49 ---~~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~-~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~  119 (164)
T cd04171          49 ---SGKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEG-IMPQTREHLEILELLGIKRGLVVLTKADLVDE  119 (164)
T ss_pred             ---CCcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCC-ccHhHHHHHHHHHHhCCCcEEEEEECccccCH
Confidence               016799999999999998888899999999999999987 666766643211    1 23456999998643

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

>KOG0467|consensus

Probab=99.72  E-value=2.3e-18  Score=157.58  Aligned_cols=113  Identities=19%  Similarity=0.245  Sum_probs=93.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh---cCC----------ccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS---GVQ----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~---g~~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      ...++|++++.|+|||||||.++|+   |..          .|...+|..||+|.+.+.-+   +.+             
T Consensus         6 ~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is---~~~-------------   69 (887)
T KOG0467|consen    6 SEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAIS---LLH-------------   69 (887)
T ss_pred             CCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccc---ccc-------------
Confidence            4567899999999999999999997   322          24557888999999876632   000             


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH----H
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL----M  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il----~  156 (182)
                                           ..+.+|+||+|||.||..++.+++..+|+|+++||+.+| +..||..+++++..    .
T Consensus        70 ---------------------~~~~~nlidspghvdf~sevssas~l~d~alvlvdvveg-v~~qt~~vlrq~~~~~~~~  127 (887)
T KOG0467|consen   70 ---------------------KDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEG-VCSQTYAVLRQAWIEGLKP  127 (887)
T ss_pred             ---------------------CceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccc-cchhHHHHHHHHHHccCce
Confidence                                 128899999999999999999999999999999999999 99999988877633    3


Q ss_pred             HhHhccch
Q psy1174         157 ATMLNGAA  164 (182)
Q Consensus       157 ~~~~nk~d  164 (182)
                      ...+||+|
T Consensus       128 ~lvinkid  135 (887)
T KOG0467|consen  128 ILVINKID  135 (887)
T ss_pred             EEEEehhh
Confidence            35599999

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.71  E-value=6.4e-18  Score=158.62  Aligned_cols=111  Identities=23%  Similarity=0.428  Sum_probs=88.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+|+||+|||||||+++|.+...   .....+|+|..++...+.                             +.+
T Consensus       289 R~pvV~ImGhvd~GKTSLl~~Lr~~~v---~~~e~~GIT~~iga~~v~-----------------------------~~~  336 (787)
T PRK05306        289 RPPVVTIMGHVDHGKTSLLDAIRKTNV---AAGEAGGITQHIGAYQVE-----------------------------TNG  336 (787)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCc---cccccCceeeeccEEEEE-----------------------------ECC
Confidence            456799999999999999999985322   222346777776653211                             112


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                              ++++|+|||||.+|...+.+++..+|++|||||+.+| +..||.+++.|+    +..+.++||+|..+
T Consensus       337 --------~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddG-v~~qT~e~i~~a~~~~vPiIVviNKiDl~~  403 (787)
T PRK05306        337 --------GKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDG-VMPQTIEAINHAKAAGVPIIVAINKIDKPG  403 (787)
T ss_pred             --------EEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCC-CCHhHHHHHHHHHhcCCcEEEEEECccccc
Confidence                    6899999999999999999999999999999999999 999999988765    34557799999754

>KOG0468|consensus

Probab=99.70  E-value=1.2e-17  Score=151.38  Aligned_cols=119  Identities=18%  Similarity=0.226  Sum_probs=97.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC--------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ--------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~--------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      -..+||+++||-.||||+|+++|....              ++....|.+||.+++....++-+-..             
T Consensus       126 ~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~-------------  192 (971)
T KOG0468|consen  126 ERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDS-------------  192 (971)
T ss_pred             ceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecC-------------
Confidence            356799999999999999999998432              34567899999999987755443111             


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH----H
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL----M  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il----~  156 (182)
                                         ....+-++++|||||.+|+.++..+++.+|+|+||||+.+| +.-+|+..++|++.    .
T Consensus       193 -------------------~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EG-VmlntEr~ikhaiq~~~~i  252 (971)
T KOG0468|consen  193 -------------------KGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEG-VMLNTERIIKHAIQNRLPI  252 (971)
T ss_pred             -------------------cCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccC-ceeeHHHHHHHHHhccCcE
Confidence                               11237899999999999999999999999999999999999 99999999999865    3


Q ss_pred             HhHhccchhh
Q psy1174         157 ATMLNGAAVM  166 (182)
Q Consensus       157 ~~~~nk~d~~  166 (182)
                      .+.+||+|..
T Consensus       253 ~vviNKiDRL  262 (971)
T KOG0468|consen  253 VVVINKVDRL  262 (971)
T ss_pred             EEEEehhHHH
Confidence            4669999843

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.69  E-value=1.8e-17  Score=151.82  Aligned_cols=111  Identities=22%  Similarity=0.412  Sum_probs=86.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+++||+|||||||+++|.+...   .....+|+|+..+...+..                             .+
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v---~~~e~~GIT~~ig~~~v~~-----------------------------~~  133 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKV---AQGEAGGITQHIGAYHVEN-----------------------------ED  133 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCc---ccccCCceeecceEEEEEE-----------------------------CC
Confidence            346799999999999999999986432   2233467777766532211                             00


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVM  166 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~  166 (182)
                             ..+++|+|||||.+|...+.+++..+|+++||||+.+| +.+||.+++.++    ++...++||+|..
T Consensus       134 -------~~~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dg-v~~qT~e~i~~~~~~~vPiIVviNKiDl~  200 (587)
T TIGR00487       134 -------GKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDG-VMPQTIEAISHAKAANVPIIVAINKIDKP  200 (587)
T ss_pred             -------CcEEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCC-CCHhHHHHHHHHHHcCCCEEEEEECcccc
Confidence                   13799999999999999999999999999999999999 999999977664    2345679999975

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.

>KOG0464|consensus

Probab=99.69  E-value=6.2e-18  Score=147.22  Aligned_cols=114  Identities=22%  Similarity=0.254  Sum_probs=97.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHh---cCC------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS---GVQ------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~---g~~------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      .++||+|+.|+++||||..+.|+   |..            ++....|++||+|++....+                   
T Consensus        36 kirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~-------------------   96 (753)
T KOG0464|consen   36 KIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVN-------------------   96 (753)
T ss_pred             hhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeee-------------------
Confidence            46899999999999999999986   221            23456899999999886632                   


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch----hhHHH
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----HDILM  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~~il~  156 (182)
                                ..|.+        +++++||||||.+|.-++.+.++..|+++.|+|+..| +++||..+.+    |.+++
T Consensus        97 ----------fdwkg--------~rinlidtpghvdf~leverclrvldgavav~dasag-ve~qtltvwrqadk~~ip~  157 (753)
T KOG0464|consen   97 ----------FDWKG--------HRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASAG-VEAQTLTVWRQADKFKIPA  157 (753)
T ss_pred             ----------ccccc--------ceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccCC-cccceeeeehhccccCCch
Confidence                      34666        9999999999999999999999999999999999999 9999987775    44889


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      .+|+||.|...
T Consensus       158 ~~finkmdk~~  168 (753)
T KOG0464|consen  158 HCFINKMDKLA  168 (753)
T ss_pred             hhhhhhhhhhh
Confidence            99999999653

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.69  E-value=2.1e-17  Score=154.11  Aligned_cols=115  Identities=24%  Similarity=0.406  Sum_probs=87.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+++||+|||||||+++|.+...   .....+|+|..++...+.+ ..                          . 
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~---~~~e~~GiTq~i~~~~v~~-~~--------------------------~-  291 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQI---AQKEAGGITQKIGAYEVEF-EY--------------------------K-  291 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccC---ccccCCccccccceEEEEE-Ee--------------------------c-
Confidence            457899999999999999999985432   1223467777665432211 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                           .....++|+|||||..|...+.+++..+|++|||||+.+| +.+||.+++.++    ++...++||+|...
T Consensus       292 -----~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dG-v~~QT~E~I~~~k~~~iPiIVViNKiDl~~  361 (742)
T CHL00189        292 -----DENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDG-VKPQTIEAINYIQAANVPIIVAINKIDKAN  361 (742)
T ss_pred             -----CCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCC-CChhhHHHHHHHHhcCceEEEEEECCCccc
Confidence                 0127899999999999999999999999999999999999 999999977664    33457799999764

>cd01890 LepA LepA subfamily

Probab=99.69  E-value=3.5e-17  Score=126.72  Aligned_cols=116  Identities=21%  Similarity=0.217  Sum_probs=80.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNK   85 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (182)
                      +||+++|++++|||||+++|++..            .++...+.++|++.......+.+.                    
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~--------------------   60 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYK--------------------   60 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEe--------------------
Confidence            689999999999999999998521            123345566777665433211110                    


Q ss_pred             CCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhc
Q psy1174          86 DDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLN  161 (182)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~n  161 (182)
                               ..   ......++++||||+.+|...+..++..+|++|+|+|+.++ ...++.+.+..    .+....++|
T Consensus        61 ---------~~---~~~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~-~~~~~~~~~~~~~~~~~~iiiv~N  127 (179)
T cd01890          61 ---------AK---DGQEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQG-VEAQTLANFYLALENNLEIIPVIN  127 (179)
T ss_pred             ---------cC---CCCcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCC-ccHhhHHHHHHHHHcCCCEEEEEE
Confidence                     00   01126789999999999999999999999999999999987 55555443221    122346799


Q ss_pred             cchhh
Q psy1174         162 GAAVM  166 (182)
Q Consensus       162 k~d~~  166 (182)
                      |+|+.
T Consensus       128 K~Dl~  132 (179)
T cd01890         128 KIDLP  132 (179)
T ss_pred             CCCCC
Confidence            99975

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.

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

Probab=99.68  E-value=2.6e-17  Score=137.05  Aligned_cols=111  Identities=17%  Similarity=0.199  Sum_probs=82.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC---------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ---------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~---------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      ||+++||+|+|||||+++|+...               .+..+.+.++++++......+                     
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~---------------------   59 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPL---------------------   59 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEE---------------------
Confidence            68999999999999999997321               123445666666665433211                     


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                              .|.+        ++++++||||+.+|...+..++..+|++++|+|+..| ...++...+.+.    +....+
T Consensus        60 --------~~~~--------~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g-~~~~~~~~~~~~~~~~~p~iiv  122 (268)
T cd04170          60 --------EWKG--------HKINLIDTPGYADFVGETRAALRAADAALVVVSAQSG-VEVGTEKLWEFADEAGIPRIIF  122 (268)
T ss_pred             --------EECC--------EEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCC-CCHHHHHHHHHHHHcCCCEEEE
Confidence                    1122        7899999999999999999999999999999999998 777776644322    334467


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|...
T Consensus       123 vNK~D~~~  130 (268)
T cd04170         123 INKMDRER  130 (268)
T ss_pred             EECCccCC
Confidence            99999664

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

>PRK13351 elongation factor G; Reviewed

Probab=99.68  E-value=2.3e-17  Score=153.64  Aligned_cols=115  Identities=20%  Similarity=0.255  Sum_probs=90.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc---C------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG---V------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g---~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ..++||+|+||+|+|||||+++|+.   .            ..+..+.|+++++|+......+.                
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~----------------   69 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCD----------------   69 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEE----------------
Confidence            3578999999999999999999972   1            12345677788888877664321                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                   |.+        .+++++|||||.+|...+..++..+|++++|+|+.+| ++.++++.+.++    +.
T Consensus        70 -------------~~~--------~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~-~~~~~~~~~~~~~~~~~p  127 (687)
T PRK13351         70 -------------WDN--------HRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTG-VQPQTETVWRQADRYGIP  127 (687)
T ss_pred             -------------ECC--------EEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCC-CCHHHHHHHHHHHhcCCC
Confidence                         122        7899999999999999999999999999999999998 888877655432    33


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|...
T Consensus       128 ~iiviNK~D~~~  139 (687)
T PRK13351        128 RLIFINKMDRVG  139 (687)
T ss_pred             EEEEEECCCCCC
Confidence            446799999774

>KOG0465|consensus

Probab=99.65  E-value=7.4e-18  Score=151.53  Aligned_cols=115  Identities=18%  Similarity=0.219  Sum_probs=97.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ...+||+++.|.+|||||+.+..+   |.            ..+....|++||+|++.....                  
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~------------------   98 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATY------------------   98 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceee------------------
Confidence            467899999999999999999886   21            134678899999999886632                  


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                 +.|..        +++|+||||||.+|-.++.++++..|+|++|+|+..| ++.||..+.+++    ++
T Consensus        99 -----------~~w~~--------~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~G-VqsQt~tV~rQ~~ry~vP  158 (721)
T KOG0465|consen   99 -----------FTWRD--------YRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAG-VESQTETVWRQMKRYNVP  158 (721)
T ss_pred             -----------eeecc--------ceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccc-eehhhHHHHHHHHhcCCC
Confidence                       23443        8999999999999999999999999999999999999 999998877664    45


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ..+|+||.|.++
T Consensus       159 ~i~FiNKmDRmG  170 (721)
T KOG0465|consen  159 RICFINKMDRMG  170 (721)
T ss_pred             eEEEEehhhhcC
Confidence            668999999875

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

Probab=99.65  E-value=1.7e-16  Score=125.63  Aligned_cols=112  Identities=23%  Similarity=0.237  Sum_probs=79.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhc---CCcc----------chhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG---VQTV----------RFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g---~~~~----------~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      +++|+++|++++|||||+++|+.   ....          ..+.+..+|++.......+                     
T Consensus         2 ~r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~---------------------   60 (194)
T cd01891           2 IRNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAV---------------------   60 (194)
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEE---------------------
Confidence            57999999999999999999984   2211          1122344454443322110                     


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~  159 (182)
                              .        ....+++++||||+.+|...+...++.+|++++|+|+.++ ...++++.+..    .+....+
T Consensus        61 --------~--------~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~-~~~~~~~~~~~~~~~~~p~iiv  123 (194)
T cd01891          61 --------T--------YKDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEG-PMPQTRFVLKKALELGLKPIVV  123 (194)
T ss_pred             --------E--------ECCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCC-ccHHHHHHHHHHHHcCCCEEEE
Confidence                    0        1127899999999999999999999999999999999987 66666553322    2334566


Q ss_pred             hccchhh
Q psy1174         160 LNGAAVM  166 (182)
Q Consensus       160 ~nk~d~~  166 (182)
                      +||+|+.
T Consensus       124 ~NK~Dl~  130 (194)
T cd01891         124 INKIDRP  130 (194)
T ss_pred             EECCCCC
Confidence            9999975

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

>COG1159 Era GTPase [General function prediction only]

Probab=99.64  E-value=2.5e-16  Score=132.08  Aligned_cols=113  Identities=20%  Similarity=0.223  Sum_probs=76.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..-|+|+|++|+|||||+|+|+|.-           +++....                             ++++|+..
T Consensus         6 sGfVaIiGrPNvGKSTLlN~l~G~K-----------isIvS~k-----------------------------~QTTR~~I   45 (298)
T COG1159           6 SGFVAIIGRPNVGKSTLLNALVGQK-----------ISIVSPK-----------------------------PQTTRNRI   45 (298)
T ss_pred             EEEEEEEcCCCCcHHHHHHHHhcCc-----------eEeecCC-----------------------------cchhhhhe
Confidence            4568999999999999999999842           2332222                             22222222


Q ss_pred             CCcc-cccceEEEeeCCChh--------HHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccc
Q psy1174          97 TGRF-QLVRHVSFVDCPGHD--------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGA  163 (182)
Q Consensus        97 ~~~~-~~~~~i~lIDtPGh~--------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~  163 (182)
                      ..-. .+..++.|+||||..        ...+....++..+|++++|||+.++ .....+..+...    ......+||+
T Consensus        46 ~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~-~~~~d~~il~~lk~~~~pvil~iNKI  124 (298)
T COG1159          46 RGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEG-WGPGDEFILEQLKKTKTPVILVVNKI  124 (298)
T ss_pred             eEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEecccc-CCccHHHHHHHHhhcCCCeEEEEEcc
Confidence            2222 334899999999952        3555677788999999999999997 655555444332    2344669999


Q ss_pred             hhhhHHH
Q psy1174         164 AVMDAAL  170 (182)
Q Consensus       164 d~~~~~~  170 (182)
                      |....+.
T Consensus       125 D~~~~~~  131 (298)
T COG1159         125 DKVKPKT  131 (298)
T ss_pred             ccCCcHH
Confidence            9776443

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=99.63  E-value=1e-16  Score=138.29  Aligned_cols=140  Identities=24%  Similarity=0.311  Sum_probs=100.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh-cCC----------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS-GVQ----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~-g~~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      .++.+|++.||+|||||||+++|. |..          .+..++|.++|.|.++++.   +|.++.++-.+         
T Consensus       115 ~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~---v~Gf~dgk~~r---------  182 (527)
T COG5258         115 PEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLR---VYGFDDGKVVR---------  182 (527)
T ss_pred             CceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEE---EEEecCCceEe---------
Confidence            467899999999999999999997 433          2367899999999998774   35554322110         


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhcc--ccCCeEEEEEEcCCCcccccccccchhhH----HHH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGA--AVMDAALLLIGCDNAAKTPEIVDCPGHDI----LMA  157 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~--~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~~  157 (182)
                        -.++-.+-..........+-+.|+||-||+.|..+.++|+  ++.|+.+|+|.|++| ++..|+|||+-++    +.+
T Consensus       183 --lknPld~aE~~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG-~~~~tkEHLgi~~a~~lPvi  259 (527)
T COG5258         183 --LKNPLDEAEKAAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDG-VTKMTKEHLGIALAMELPVI  259 (527)
T ss_pred             --ecCcccHHHHhHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCC-cchhhhHhhhhhhhhcCCEE
Confidence              0000000000000112237899999999999999999999  899999999999999 9999999775432    233


Q ss_pred             hHhccchhhhHH
Q psy1174         158 TMLNGAAVMDAA  169 (182)
Q Consensus       158 ~~~nk~d~~~~~  169 (182)
                      ..++|+|+.+.+
T Consensus       260 VvvTK~D~~~dd  271 (527)
T COG5258         260 VVVTKIDMVPDD  271 (527)
T ss_pred             EEEEecccCcHH
Confidence            568999987644

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.60  E-value=8e-16  Score=141.03  Aligned_cols=127  Identities=20%  Similarity=0.294  Sum_probs=82.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ++.|+++||+|||||||+++|.+....   .....++|..++.+.+.. ..    .     ....+.... .    +.  
T Consensus         6 ~p~V~i~Gh~~~GKTSLl~~l~~~~v~---~~~~g~itq~ig~~~~~~-~~----~-----~~~~~~~~~-~----~~--   65 (586)
T PRK04004          6 QPIVVVLGHVDHGKTTLLDKIRGTAVA---AKEAGGITQHIGATEVPI-DV----I-----EKIAGPLKK-P----LP--   65 (586)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcccc---cCCCCceEEeeceeeccc-cc----c-----ccccceecc-c----cc--
Confidence            456999999999999999999865321   222355666665431110 00    0     000000000 0    00  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVM  166 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~  166 (182)
                        .......++|+|||||.+|...+.++++.+|++++|||+.+| +..|+.+++.+.    +....++||+|..
T Consensus        66 --~~~~~~~i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g-~~~qt~e~i~~~~~~~vpiIvviNK~D~~  136 (586)
T PRK04004         66 --IKLKIPGLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEG-FQPQTIEAINILKRRKTPFVVAANKIDRI  136 (586)
T ss_pred             --cccccCCEEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCC-CCHhHHHHHHHHHHcCCCEEEEEECcCCc
Confidence              000002389999999999999999999999999999999999 899999866543    2234679999975

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

Probab=99.58  E-value=1.4e-15  Score=139.42  Aligned_cols=128  Identities=20%  Similarity=0.280  Sum_probs=83.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .+.|+++||+|||||||+++|.+...   .....+++|..++...+......          ...+.. ......     
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v---~~~e~ggiTq~iG~~~v~~~~~~----------~~~~~~-~~~~~v-----   64 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAV---AKREAGGITQHIGATEIPMDVIE----------GICGDL-LKKFKI-----   64 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcccc---ccccCCceecccCeeEeeecccc----------cccccc-cccccc-----
Confidence            45699999999999999999997532   11223556666555321110000          000000 000000     


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                         ......+.|+|||||++|...+..+++.+|++++|+|+.+| +..|+.+++.+.    +....++||+|...
T Consensus        65 ---~~~~~~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g-~~~qt~e~i~~l~~~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        65 ---RLKIPGLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEG-FKPQTQEALNILRMYKTPFVVAANKIDRIP  135 (590)
T ss_pred             ---ccccCcEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcC-CCHhHHHHHHHHHHcCCCEEEEEECCCccc
Confidence               00012489999999999999999999999999999999999 888998866543    23446799999863

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.58  E-value=2.2e-15  Score=116.65  Aligned_cols=111  Identities=30%  Similarity=0.450  Sum_probs=78.2

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCcc-------------chhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTV-------------RFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNK   85 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~-------------~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (182)
                      +|+++|.+|+|||||+++|++....             ....+.+++.+..........                     
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------   59 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW---------------------   59 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee---------------------
Confidence            5899999999999999999854321             122344455554433211110                     


Q ss_pred             CCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhc
Q psy1174          86 DDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLN  161 (182)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~n  161 (182)
                                      ....+.++||||+.+|......++..+|++++|+|+..+ ...+.++.+.+.    .....++|
T Consensus        60 ----------------~~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~i~iv~n  122 (189)
T cd00881          60 ----------------PDRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEG-VQPQTREHLRIAREGGLPIIVAIN  122 (189)
T ss_pred             ----------------CCEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCC-CcHHHHHHHHHHHHCCCCeEEEEE
Confidence                            126799999999999999889999999999999999988 555555543332    22346799


Q ss_pred             cchhhh
Q psy1174         162 GAAVMD  167 (182)
Q Consensus       162 k~d~~~  167 (182)
                      |+|...
T Consensus       123 K~D~~~  128 (189)
T cd00881         123 KIDRVG  128 (189)
T ss_pred             CCCCcc
Confidence            999764

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.

>PRK12740 elongation factor G; Reviewed

Probab=99.55  E-value=2.9e-15  Score=139.11  Aligned_cols=106  Identities=21%  Similarity=0.320  Sum_probs=83.5

Q ss_pred             ECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCC
Q psy1174          23 IGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDD   87 (182)
Q Consensus        23 iG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (182)
                      +||+|||||||+++|+   |.            ..|+.+.|++||+|+......+.                        
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~------------------------   56 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCE------------------------   56 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEE------------------------
Confidence            6999999999999995   32            23456788899999987664322                        


Q ss_pred             CCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccc
Q psy1174          88 SFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGA  163 (182)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~  163 (182)
                           |.+        +.+++||||||.+|...+..++..+|++++|||+.++ ...++..++..+    +....++||+
T Consensus        57 -----~~~--------~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~-~~~~~~~~~~~~~~~~~p~iiv~NK~  122 (668)
T PRK12740         57 -----WKG--------HKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGG-VEPQTETVWRQAEKYGVPRIIFVNKM  122 (668)
T ss_pred             -----ECC--------EEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCC-cCHHHHHHHHHHHHcCCCEEEEEECC
Confidence                 122        7899999999999999999999999999999999998 777776644332    2344679999


Q ss_pred             hhh
Q psy1174         164 AVM  166 (182)
Q Consensus       164 d~~  166 (182)
                      |..
T Consensus       123 D~~  125 (668)
T PRK12740        123 DRA  125 (668)
T ss_pred             CCC
Confidence            976

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

Probab=99.55  E-value=5.9e-15  Score=112.59  Aligned_cols=111  Identities=23%  Similarity=0.392  Sum_probs=75.3

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|++|+|||||+++|.+...   .....++.|..........                             ..   
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~---~~~~~~~~t~~~~~~~~~~-----------------------------~~---   46 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNV---AAGEAGGITQHIGAFEVPA-----------------------------EV---   46 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhccc---ccccCCCeEEeeccEEEec-----------------------------cc---
Confidence            589999999999999999985321   1112234444443211110                             00   


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                        .....++++||||+..|...+..++..+|++++|+|+.++ ...++.+.+...    +....++||+|+.+
T Consensus        47 --~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~-~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~  116 (168)
T cd01887          47 --LKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDG-VMPQTIEAIKLAKAANVPFIVALNKIDKPN  116 (168)
T ss_pred             --CCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCC-ccHHHHHHHHHHHHcCCCEEEEEEceeccc
Confidence              0126799999999999988888888999999999999987 666665543321    22345689999763

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.

>KOG0459|consensus

Probab=99.49  E-value=3.8e-15  Score=129.10  Aligned_cols=111  Identities=27%  Similarity=0.368  Sum_probs=82.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cCCcc-------------------------chhhHhhhceeeeeccccceeee
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GVQTV-------------------------RFKNELERNITIKLGYANAKIYK   66 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~~~~-------------------------~~~~e~~~g~t~~~~~~~~~~~~   66 (182)
                      +.+.|+.++||+++||||.-+.|+   |..+.                         +..+|+++|-|+..+.+      
T Consensus        77 k~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA------  150 (501)
T KOG0459|consen   77 KEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRA------  150 (501)
T ss_pred             CCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeE------
Confidence            678899999999999999999887   33221                         12233333333333222      


Q ss_pred             cCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-----
Q psy1174          67 CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-----  141 (182)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-----  141 (182)
                                                     -++++.++++++|+|||..|..+|+.|+.+||.++|||+|..|+     
T Consensus       151 -------------------------------~FEte~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgF  199 (501)
T KOG0459|consen  151 -------------------------------YFETENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGF  199 (501)
T ss_pred             -------------------------------EEEecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhccc
Confidence                                           23355689999999999999999999999999999999998765     


Q ss_pred             -ccccccccchhhHHHHh--------Hhccchh
Q psy1174         142 -KTPEIVDCPGHDILMAT--------MLNGAAV  165 (182)
Q Consensus       142 -~~~qt~e~l~~~il~~~--------~~nk~d~  165 (182)
                       .-+||+|   |+.|+.+        ++||.|-
T Consensus       200 erGgQTRE---ha~Lakt~gv~~lVv~vNKMdd  229 (501)
T KOG0459|consen  200 EKGGQTRE---HAMLAKTAGVKHLIVLINKMDD  229 (501)
T ss_pred             ccccchhH---HHHHHHhhccceEEEEEEeccC
Confidence             4569999   8877664        4777763

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.44  E-value=7.3e-14  Score=122.89  Aligned_cols=110  Identities=17%  Similarity=0.162  Sum_probs=79.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      +.|+|+|++|.|||||+|+|+|....  -.+...|+|.+..|...                             .|.+  
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~A--IV~D~pGvTRDr~y~~~-----------------------------~~~~--   50 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIA--IVSDTPGVTRDRIYGDA-----------------------------EWLG--   50 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeee--EeecCCCCccCCcccee-----------------------------EEcC--
Confidence            56999999999999999999975321  11223666766666432                             2344  


Q ss_pred             CcccccceEEEeeCCChhH---------HHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccch
Q psy1174          98 GRFQLVRHVSFVDCPGHDI---------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAA  164 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~---------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d  164 (182)
                            +.|.+|||+|...         .......++..||++|+|||+.+| +.++.+++-.++    ...+..+||+|
T Consensus        51 ------~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~G-it~~D~~ia~~Lr~~~kpviLvvNK~D  123 (444)
T COG1160          51 ------REFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREG-ITPADEEIAKILRRSKKPVILVVNKID  123 (444)
T ss_pred             ------ceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCC-CCHHHHHHHHHHHhcCCCEEEEEEccc
Confidence                  7799999999752         334567778999999999999999 888877644332    22335599999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      -.+
T Consensus       124 ~~~  126 (444)
T COG1160         124 NLK  126 (444)
T ss_pred             Cch
Confidence            653

>KOG1144|consensus

Probab=99.44  E-value=3.5e-14  Score=130.27  Aligned_cols=127  Identities=20%  Similarity=0.269  Sum_probs=87.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.+.+||+||+|+|||-|++.|.+.+.   +.....|+|.+++.+.+.+   ++-    .  -.......+......   
T Consensus       474 RSPIcCilGHVDTGKTKlld~ir~tNV---qegeaggitqqIgAt~fp~---~ni----~--e~tk~~~~~~K~~~k---  538 (1064)
T KOG1144|consen  474 RSPICCILGHVDTGKTKLLDKIRGTNV---QEGEAGGITQQIGATYFPA---ENI----R--EKTKELKKDAKKRLK---  538 (1064)
T ss_pred             CCceEEEeecccccchHHHHHhhcccc---ccccccceeeeccccccch---HHH----H--HHHHHHHhhhhhhcC---
Confidence            334589999999999999999987643   4556688999887753222   100    0  000000000000000   


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH----HHhHhccchh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL----MATMLNGAAV  165 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il----~~~~~nk~d~  165 (182)
                             .--+.+||||||+.|..-+.+|++.+|.||||||...| +.+||.|.|+.+..    -+..+||+|-
T Consensus       539 -------vPg~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhG-lepqtiESi~lLR~rktpFivALNKiDR  604 (1064)
T KOG1144|consen  539 -------VPGLLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHG-LEPQTIESINLLRMRKTPFIVALNKIDR  604 (1064)
T ss_pred             -------CCeeEEecCCCchhhhhhhhccccccceEEEEeehhcc-CCcchhHHHHHHHhcCCCeEEeehhhhh
Confidence                   12388999999999999999999999999999999999 99999998866422    2245899983

>TIGR00436 era GTP-binding protein Era

Probab=99.42  E-value=2.2e-13  Score=113.70  Aligned_cols=108  Identities=16%  Similarity=0.130  Sum_probs=64.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|++|+|||||+|+|++.....  .....+.|.....   .+                                  
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~--vs~~~~TTr~~i~---~i----------------------------------   42 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISI--TSPKAQTTRNRIS---GI----------------------------------   42 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEee--cCCCCCcccCcEE---EE----------------------------------
Confidence            48999999999999999999742110  0001111111000   00                                  


Q ss_pred             cccccceEEEeeCCChhH--------HHHHHHhccccCCeEEEEEEcCCCcccccccccch----hhHHHHhHhccchhh
Q psy1174          99 RFQLVRHVSFVDCPGHDI--------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~--------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~~il~~~~~nk~d~~  166 (182)
                      ......++.|+||||+..        +...+..++..+|++++|+|+..+ ...+ +..+.    .......++||+|+.
T Consensus        43 ~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~-~~~~-~~i~~~l~~~~~p~ilV~NK~Dl~  120 (270)
T TIGR00436        43 HTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQW-NGDG-EFVLTKLQNLKRPVVLTRNKLDNK  120 (270)
T ss_pred             EEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCC-CchH-HHHHHHHHhcCCCEEEEEECeeCC
Confidence            001126799999999642        233455677899999999999986 3332 21111    112334669999986


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      .
T Consensus       121 ~  121 (270)
T TIGR00436       121 F  121 (270)
T ss_pred             C
Confidence            4

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.40  E-value=1.6e-13  Score=104.85  Aligned_cols=64  Identities=16%  Similarity=0.149  Sum_probs=45.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccccc----ch----hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDC----PG----HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~----l~----~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+..|.......+..+|++++|+|+.+..........    +.    ..+....++||+|...
T Consensus        50 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~  121 (167)
T cd04160          50 ARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPD  121 (167)
T ss_pred             EEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEcccccc
Confidence            7899999999999998878888999999999999865211111111    11    1234456799999754

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.

>KOG0463|consensus

Probab=99.39  E-value=1.1e-13  Score=119.75  Aligned_cols=135  Identities=19%  Similarity=0.252  Sum_probs=96.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCc-----------cchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQT-----------VRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKD   86 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~-----------~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (182)
                      .+|+|+|.+++|||||++.|.....           -++++|.|.|.|.+.+...+-              |...+..-+
T Consensus       134 ~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILG--------------FD~~GNvVN  199 (641)
T KOG0463|consen  134 ARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILG--------------FDVHGNVVN  199 (641)
T ss_pred             EEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCcccccccccee--------------ecccccccc
Confidence            4799999999999999999984332           268899999988876543211              222222111


Q ss_pred             --CCC--cccCCCCCCcccccceEEEeeCCChhHHHHHHHhcc--ccCCeEEEEEEcCCCcccccccccchhhH----HH
Q psy1174          87 --DSF--PCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGA--AVMDAALLLIGCDNAAKTPEIVDCPGHDI----LM  156 (182)
Q Consensus        87 --~~~--~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~--~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~  156 (182)
                        +..  ..+|..+.+  .+...++|||-.||+.|.++..-|+  ...|+.+|+|.|+.| +.++|+|||+.++    ++
T Consensus       200 KPD~Hg~~LdWvkIce--~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaG-IiGmTKEHLgLALaL~VPV  276 (641)
T KOG0463|consen  200 KPDPHGHNLDWVKICE--DSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAG-IIGMTKEHLGLALALHVPV  276 (641)
T ss_pred             CCCCCCCcccceeecc--ccceeEEEEeccchhhhhheeeeccccCCCCceEEEeccccc-ceeccHHhhhhhhhhcCcE
Confidence              111  122332222  2236799999999999999999988  789999999999999 9999999887653    34


Q ss_pred             HhHhccchhhhHH
Q psy1174         157 ATMLNGAAVMDAA  169 (182)
Q Consensus       157 ~~~~nk~d~~~~~  169 (182)
                      +..+.|||+-.+.
T Consensus       277 fvVVTKIDMCPAN  289 (641)
T KOG0463|consen  277 FVVVTKIDMCPAN  289 (641)
T ss_pred             EEEEEeeccCcHH
Confidence            4668999976433

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.39  E-value=5e-13  Score=118.05  Aligned_cols=113  Identities=18%  Similarity=0.152  Sum_probs=75.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|++|+|||||+++|++....  ......|.|.+.....+.                               
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~--~~~~~~gtt~~~~~~~~~-------------------------------  217 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERV--IVSDIAGTTRDSIDTPFE-------------------------------  217 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCce--eecCCCCceEEEEEEEEE-------------------------------
Confidence            34678999999999999999999974311  112234455443221100                               


Q ss_pred             CCCCcccccceEEEeeCCChh----------HHH-HHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHD----------ILM-ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~----------~f~-~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                            ..+..+.++||||+.          .|. .....++..+|++|+|+|+.+| ...|..+.+.++    .....+
T Consensus       218 ------~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~-~~~~~~~i~~~~~~~~~~~ivv  290 (435)
T PRK00093        218 ------RDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEG-ITEQDLRIAGLALEAGRALVIV  290 (435)
T ss_pred             ------ECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCC-CCHHHHHHHHHHHHcCCcEEEE
Confidence                  112679999999963          222 2345678899999999999999 777776644332    234467


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|+.+
T Consensus       291 ~NK~Dl~~  298 (435)
T PRK00093        291 VNKWDLVD  298 (435)
T ss_pred             EECccCCC
Confidence            99999864

>cd01894 EngA1 EngA1 subfamily

Probab=99.39  E-value=2.3e-13  Score=102.18  Aligned_cols=64  Identities=13%  Similarity=0.088  Sum_probs=44.7

Q ss_pred             ceEEEeeCCChhHHHH--------HHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccchhhhH
Q psy1174         104 RHVSFVDCPGHDILMA--------TMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAAVMDA  168 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~--------~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d~~~~  168 (182)
                      ..+.++||||+.++..        .....+..+|++++|+|+..+ ......+++..    ......++||+|....
T Consensus        45 ~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~-~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~  120 (157)
T cd01894          45 REFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREG-LTPADEEIAKYLRKSKKPVILVVNKVDNIKE  120 (157)
T ss_pred             eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEecccc-CCccHHHHHHHHHhcCCCEEEEEECcccCCh
Confidence            6799999999977433        445667889999999999876 44444332221    1334567999997753

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.38  E-value=6.4e-13  Score=111.62  Aligned_cols=62  Identities=18%  Similarity=0.206  Sum_probs=43.4

Q ss_pred             ceEEEeeCCChhH--------HHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDI--------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~--------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~  166 (182)
                      .++.|+||||..+        +......++..+|++++|+|+.++ ......+++...    .....++||+|+.
T Consensus        53 ~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~-~~~~~~~i~~~l~~~~~pvilVlNKiDl~  126 (292)
T PRK00089         53 AQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEK-IGPGDEFILEKLKKVKTPVILVLNKIDLV  126 (292)
T ss_pred             ceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCC-CChhHHHHHHHHhhcCCCEEEEEECCcCC
Confidence            6899999999632        334556677899999999999985 444444333221    2344668999987

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.37  E-value=4.2e-13  Score=118.16  Aligned_cols=109  Identities=16%  Similarity=0.151  Sum_probs=72.0

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|++|+|||||+++|++....  ..+...|+|.+..+..                             ..+.+   
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~--~v~~~~g~t~d~~~~~-----------------------------~~~~~---   46 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDA--IVSDTPGVTRDRKYGD-----------------------------AEWGG---   46 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcc--eecCCCCcccCceEEE-----------------------------EEECC---
Confidence            3899999999999999999874311  0111133333332211                             11122   


Q ss_pred             cccccceEEEeeCCCh--------hHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccchhh
Q psy1174          99 RFQLVRHVSFVDCPGH--------DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAAVM  166 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh--------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d~~  166 (182)
                           ..+.++||||+        ..+...+..++..+|++++|+|+.+| ......++...    ....+..+||+|..
T Consensus        47 -----~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~-~~~~d~~i~~~l~~~~~piilVvNK~D~~  120 (429)
T TIGR03594        47 -----REFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREG-LTPEDEEIAKWLRKSGKPVILVANKIDGK  120 (429)
T ss_pred             -----eEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCC-CCHHHHHHHHHHHHhCCCEEEEEECccCC
Confidence                 67999999997        45666677788999999999999998 66655442221    12234569999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       121 ~  121 (429)
T TIGR03594       121 K  121 (429)
T ss_pred             c
Confidence            4

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.36  E-value=9.8e-13  Score=103.50  Aligned_cols=117  Identities=20%  Similarity=0.210  Sum_probs=79.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCcc-------chhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTV-------RFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDD   87 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~-------~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (182)
                      .....|+|+|+.++||||++++++.....       ......+|..|+...+-...++                      
T Consensus         8 ~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~----------------------   65 (187)
T COG2229           8 MIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELD----------------------   65 (187)
T ss_pred             ccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEc----------------------
Confidence            44457999999999999999999844321       0011113446776666443331                      


Q ss_pred             CCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch---hh--HHHHhHhcc
Q psy1174          88 SFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG---HD--ILMATMLNG  162 (182)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~---~~--il~~~~~nk  162 (182)
                                    +.+.+.++|||||.+|...+...++.++++|++||++++ +....++.++   +.  +....+.||
T Consensus        66 --------------~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~-~~~~a~~ii~f~~~~~~ip~vVa~NK  130 (187)
T COG2229          66 --------------EDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRP-ITFHAEEIIDFLTSRNPIPVVVAINK  130 (187)
T ss_pred             --------------CcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCC-cchHHHHHHHHHhhccCCCEEEEeec
Confidence                          126799999999999999888889999999999999998 4331122111   11  233456889


Q ss_pred             chhhhH
Q psy1174         163 AAVMDA  168 (182)
Q Consensus       163 ~d~~~~  168 (182)
                      +|+.+.
T Consensus       131 ~DL~~a  136 (187)
T COG2229         131 QDLFDA  136 (187)
T ss_pred             cccCCC
Confidence            988864

>PRK15494 era GTPase Era; Provisional

Probab=99.36  E-value=6.3e-13  Score=114.63  Aligned_cols=114  Identities=19%  Similarity=0.132  Sum_probs=68.1

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      +....+|+++|++|+|||||+++|++.....  ...+.+.|......   +                             
T Consensus        49 ~~k~~kV~ivG~~nvGKSTLin~l~~~k~~i--vs~k~~tTr~~~~~---~-----------------------------   94 (339)
T PRK15494         49 NQKTVSVCIIGRPNSGKSTLLNRIIGEKLSI--VTPKVQTTRSIITG---I-----------------------------   94 (339)
T ss_pred             ccceeEEEEEcCCCCCHHHHHHHHhCCceee--ccCCCCCccCcEEE---E-----------------------------
Confidence            3455689999999999999999998742110  00011111111000   0                             


Q ss_pred             CCCCCcccccceEEEeeCCChhH--------HHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhc
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDI--------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLN  161 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~--------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~n  161 (182)
                           ....+.++.|+||||...        +......++..+|++++|||+.++ +....+..+..    ......++|
T Consensus        95 -----~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~s-~~~~~~~il~~l~~~~~p~IlViN  168 (339)
T PRK15494         95 -----ITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLKS-FDDITHNILDKLRSLNIVPIFLLN  168 (339)
T ss_pred             -----EEeCCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCCC-CCHHHHHHHHHHHhcCCCEEEEEE
Confidence                 001126899999999732        333344567899999999999876 54443332221    112335689


Q ss_pred             cchhhh
Q psy1174         162 GAAVMD  167 (182)
Q Consensus       162 k~d~~~  167 (182)
                      |+|+.+
T Consensus       169 KiDl~~  174 (339)
T PRK15494        169 KIDIES  174 (339)
T ss_pred             hhcCcc
Confidence            999764

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

Probab=99.36  E-value=9.1e-13  Score=102.97  Aligned_cols=119  Identities=13%  Similarity=0.173  Sum_probs=72.8

Q ss_pred             CCCccccccCCCcceEEECCCCCChHHHHhHHhcCC-ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCC
Q psy1174           6 TLQSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQ-TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSN   84 (182)
Q Consensus         6 ~~~~~~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~-~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (182)
                      ..-+..+.+....+|+++|++|+|||||+++|.+.. ..  ......+.|....+     |..                 
T Consensus         7 ~~~~~~~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~--~~~~~~~~t~~~~~-----~~~-----------------   62 (179)
T TIGR03598         7 AVKLKQLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLA--RTSKTPGRTQLINF-----FEV-----------------   62 (179)
T ss_pred             eccHhhCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcc--cccCCCCcceEEEE-----EEe-----------------
Confidence            344556666777899999999999999999998642 11  00111222222211     100                 


Q ss_pred             CCCCCcccCCCCCCcccccceEEEeeCCChh----------HHHHHH---HhccccCCeEEEEEEcCCCcccccccccch
Q psy1174          85 KDDSFPCLRSSCTGRFQLVRHVSFVDCPGHD----------ILMATM---LNGAAVMDAALLLIGCDNAAKTPEIVDCPG  151 (182)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~----------~f~~~~---~~~~~~aD~ailVVda~~g~~~~qt~e~l~  151 (182)
                                        ...+.++||||+.          .|...+   .+....+|++++|+|+..+ +..++.+.++
T Consensus        63 ------------------~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~-~~~~~~~~~~  123 (179)
T TIGR03598        63 ------------------NDGFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHP-LKELDLEMLE  123 (179)
T ss_pred             ------------------CCcEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCC-CCHHHHHHHH
Confidence                              0358999999952          333322   2333457899999999987 6665554332


Q ss_pred             hh----HHHHhHhccchhhh
Q psy1174         152 HD----ILMATMLNGAAVMD  167 (182)
Q Consensus       152 ~~----il~~~~~nk~d~~~  167 (182)
                      ..    .....++||+|.++
T Consensus       124 ~~~~~~~pviiv~nK~D~~~  143 (179)
T TIGR03598       124 WLRERGIPVLIVLTKADKLK  143 (179)
T ss_pred             HHHHcCCCEEEEEECcccCC
Confidence            21    23346689999864

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.35  E-value=7.4e-13  Score=102.15  Aligned_cols=97  Identities=15%  Similarity=0.242  Sum_probs=63.8

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|++|+|||||+++|.|....       ...+....+                                  ..   
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~~-------~~~~~~v~~----------------------------------~~---   38 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYTL-------ARKTQAVEF----------------------------------ND---   38 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCcc-------CccceEEEE----------------------------------CC---
Confidence            5999999999999999999874311       001111111                                  00   


Q ss_pred             cccccceEEEeeCCCh----hHHHHHHHhccccCCeEEEEEEcCCCcccccccccch--hhHHHHhHhccchhhh
Q psy1174          99 RFQLVRHVSFVDCPGH----DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG--HDILMATMLNGAAVMD  167 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh----~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~--~~il~~~~~nk~d~~~  167 (182)
                           .  .++||||.    .++...+..++..+|++++|+|+.++ ........+.  .......++||+|+.+
T Consensus        39 -----~--~~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~-~s~~~~~~~~~~~~~~ii~v~nK~Dl~~  105 (158)
T PRK15467         39 -----K--GDIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDP-ESRLPAGLLDIGVSKRQIAVISKTDMPD  105 (158)
T ss_pred             -----C--CcccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCc-ccccCHHHHhccCCCCeEEEEEccccCc
Confidence                 1  26999996    56777788889999999999999987 3323222111  1122346799999754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.34  E-value=5.4e-13  Score=117.44  Aligned_cols=111  Identities=18%  Similarity=0.089  Sum_probs=72.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|++....  ......|.|.+.....+                             .   
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~--~~~~~~gtt~~~~~~~~-----------------------------~---  216 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERV--IVSDIAGTTRDSIDIPF-----------------------------E---  216 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCee--ecCCCCCceECcEeEEE-----------------------------E---
Confidence            4568999999999999999999974311  01112333333211100                             0   


Q ss_pred             CCCcccccceEEEeeCCChhHH----------H-HHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDIL----------M-ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATML  160 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f----------~-~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~  160 (182)
                           ..+..+.++||||+.++          . .....++..+|++|+|+|+.+| ...++.+.+.++    .....++
T Consensus       217 -----~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~-~~~~~~~~~~~~~~~~~~iiiv~  290 (429)
T TIGR03594       217 -----RNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEG-ITEQDLRIAGLILEAGKALVIVV  290 (429)
T ss_pred             -----ECCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCC-ccHHHHHHHHHHHHcCCcEEEEE
Confidence                 11257999999997432          2 1234577899999999999998 777776644433    3345679


Q ss_pred             ccchhh
Q psy1174         161 NGAAVM  166 (182)
Q Consensus       161 nk~d~~  166 (182)
                      ||+|+.
T Consensus       291 NK~Dl~  296 (429)
T TIGR03594       291 NKWDLV  296 (429)
T ss_pred             ECcccC
Confidence            999986

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>cd01895 EngA2 EngA2 subfamily

Probab=99.33  E-value=1.6e-12  Score=98.62  Aligned_cols=112  Identities=19%  Similarity=0.148  Sum_probs=65.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+++|++|+|||||+++|++.....  .+..++.+......                             ..     
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~--~~~~~~~~~~~~~~-----------------------------~~-----   45 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVI--VSDIAGTTRDSIDV-----------------------------PF-----   45 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCcccee--ccCCCCCccCceee-----------------------------EE-----
Confidence            4679999999999999999998642100  00011111111000                             00     


Q ss_pred             CCcccccceEEEeeCCChhHH----------H-HHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhc
Q psy1174          97 TGRFQLVRHVSFVDCPGHDIL----------M-ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLN  161 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f----------~-~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~n  161 (182)
                         ......+.++||||+.+.          . ......+..+|++++|+|+..+ ...+....+..    ......++|
T Consensus        46 ---~~~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~-~~~~~~~~~~~~~~~~~~~iiv~n  121 (174)
T cd01895          46 ---EYDGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEG-ITEQDLRIAGLILEEGKALVIVVN  121 (174)
T ss_pred             ---EECCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCC-cchhHHHHHHHHHhcCCCEEEEEe
Confidence               011256899999997432          1 1234556889999999999987 44433322211    122345689


Q ss_pred             cchhhhH
Q psy1174         162 GAAVMDA  168 (182)
Q Consensus       162 k~d~~~~  168 (182)
                      |+|+.+.
T Consensus       122 K~Dl~~~  128 (174)
T cd01895         122 KWDLVEK  128 (174)
T ss_pred             ccccCCc
Confidence            9997653

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.

>cd01898 Obg Obg subfamily

Probab=99.32  E-value=9.7e-13  Score=100.59  Aligned_cols=83  Identities=22%  Similarity=0.137  Sum_probs=51.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|++|+|||||+++|.+....   .....+.|.......+.                             ..+   
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~---v~~~~~~t~~~~~~~~~-----------------------------~~~---   46 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPK---IADYPFTTLVPNLGVVR-----------------------------VDD---   46 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCcc---ccCCCccccCCcceEEE-----------------------------cCC---
Confidence            6899999999999999999863210   00001111111100000                             000   


Q ss_pred             cccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ..++.++||||+.       .+.....+.+..+|++++|+|+..+
T Consensus        47 ----~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~   91 (170)
T cd01898          47 ----GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGD   91 (170)
T ss_pred             ----CCeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCC
Confidence                1379999999973       2334445566779999999999876

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.

>cd01864 Rab19 Rab19 subfamily

Probab=99.32  E-value=1.3e-12  Score=99.96  Aligned_cols=112  Identities=12%  Similarity=0.083  Sum_probs=68.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+++|+.|+|||||+++|.+....   .+.......+.....+.+                             .  
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~~~~---~~~~~t~~~~~~~~~~~~-----------------------------~--   48 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSGTFS---ERQGNTIGVDFTMKTLEI-----------------------------E--   48 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhCCCc---ccCCCccceEEEEEEEEE-----------------------------C--
Confidence            478999999999999999999742210   010011111111100000                             0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccch-------hhHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                          .....+.++||||+..|.......+..+|++++|+|+.+.. .-+. +..+.       ..++...+.||+|+..
T Consensus        49 ----~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  122 (165)
T cd01864          49 ----GKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRS-SFESVPHWIEEVEKYGASNVVLLLIGNKCDLEE  122 (165)
T ss_pred             ----CEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHH-HHHhHHHHHHHHHHhCCCCCcEEEEEECccccc
Confidence                01146899999999999887777788999999999999862 1111 11111       1233446699999763

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.31  E-value=7.3e-13  Score=116.62  Aligned_cols=113  Identities=19%  Similarity=0.148  Sum_probs=78.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      .++.|+|||++|+|||||+|+|+|+...  -.+...|.|.+.-..                             ..+|.+
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~--Iv~~~aGTTRD~I~~-----------------------------~~e~~~  225 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERV--IVSDIAGTTRDSIDI-----------------------------EFERDG  225 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceE--EecCCCCccccceee-----------------------------eEEECC
Confidence            4688999999999999999999986421  111123444433221                             112233


Q ss_pred             CCCcccccceEEEeeCCChhH----------HH-HHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDI----------LM-ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATML  160 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~----------f~-~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~  160 (182)
                              +++.+|||.|..+          |. .....++..||+++||+||.+| +..|.....+++    .....++
T Consensus       226 --------~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~-~~~qD~~ia~~i~~~g~~~vIvv  296 (444)
T COG1160         226 --------RKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEG-ISEQDLRIAGLIEEAGRGIVIVV  296 (444)
T ss_pred             --------eEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCC-chHHHHHHHHHHHHcCCCeEEEE
Confidence                    8999999999642          22 2356778999999999999999 888888755543    2234669


Q ss_pred             ccchhhhH
Q psy1174         161 NGAAVMDA  168 (182)
Q Consensus       161 nk~d~~~~  168 (182)
                      ||.|.+..
T Consensus       297 NKWDl~~~  304 (444)
T COG1160         297 NKWDLVEE  304 (444)
T ss_pred             EccccCCc
Confidence            99997654

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.31  E-value=2.1e-12  Score=96.45  Aligned_cols=96  Identities=18%  Similarity=0.182  Sum_probs=62.0

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|++|+|||||+++|.+....       ...|+...                                        
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~-------~~~t~~~~----------------------------------------   34 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL-------YKKTQAVE----------------------------------------   34 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc-------cccceeEE----------------------------------------
Confidence            5899999999999999999864210       00111111                                        


Q ss_pred             cccccceEEEeeCCChh----HHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-hHHHHhHhccchhhh
Q psy1174          99 RFQLVRHVSFVDCPGHD----ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-DILMATMLNGAAVMD  167 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~----~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-~il~~~~~nk~d~~~  167 (182)
                           ..-.++||||..    .+...+...+..+|++++|+|+.++ ...+..+.+.. ......++||+|+..
T Consensus        35 -----~~~~~iDt~G~~~~~~~~~~~~~~~~~~ad~vilv~d~~~~-~s~~~~~~~~~~~~p~ilv~NK~Dl~~  102 (142)
T TIGR02528        35 -----YNDGAIDTPGEYVENRRLYSALIVTAADADVIALVQSATDP-ESRFPPGFASIFVKPVIGLVTKIDLAE  102 (142)
T ss_pred             -----EcCeeecCchhhhhhHHHHHHHHHHhhcCCEEEEEecCCCC-CcCCChhHHHhccCCeEEEEEeeccCC
Confidence                 112679999973    4445555668999999999999987 44433332211 013345689999753

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.

>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=99.30  E-value=8.1e-13  Score=102.48  Aligned_cols=111  Identities=19%  Similarity=0.172  Sum_probs=62.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|.+|+|||||+|+|+|...   +...-.|.|+......+.+                                 
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~---~v~n~pG~Tv~~~~g~~~~---------------------------------   44 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQ---KVGNWPGTTVEKKEGIFKL---------------------------------   44 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSE---EEEESTTSSSEEEEEEEEE---------------------------------
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCc---eecCCCCCCeeeeeEEEEe---------------------------------
Confidence            3689999999999999999998541   1111244454433221111                                 


Q ss_pred             CcccccceEEEeeCCChhHHH-----HHH-Hhc--cccCCeEEEEEEcCCCccc-ccccccchhhHHHHhHhccchhhhH
Q psy1174          98 GRFQLVRHVSFVDCPGHDILM-----ATM-LNG--AAVMDAALLLIGCDNAAKT-PEIVDCPGHDILMATMLNGAAVMDA  168 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~-----~~~-~~~--~~~aD~ailVVda~~g~~~-~qt~e~l~~~il~~~~~nk~d~~~~  168 (182)
                          ....+.++|+||.-++.     ..+ ...  ....|++++|+||..-+.. ..+.+.+.+.+++...+||+|...+
T Consensus        45 ----~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~  120 (156)
T PF02421_consen   45 ----GDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEAER  120 (156)
T ss_dssp             ----TTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHH
T ss_pred             ----cCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHHHH
Confidence                12789999999942211     011 111  3689999999999853100 0112222244555577999997753

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 ....

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

Probab=99.29  E-value=3.6e-12  Score=97.35  Aligned_cols=95  Identities=19%  Similarity=0.232  Sum_probs=65.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|.+||++++|||||+++|.+....       ...|..+.|                                      
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~~-------~~KTq~i~~--------------------------------------   36 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEIR-------YKKTQAIEY--------------------------------------   36 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCCC-------cCccceeEe--------------------------------------
Confidence            35899999999999999999874322       222333332                                      


Q ss_pred             CcccccceEEEeeCCC----hhHHHHHHHhccccCCeEEEEEEcCCCc--ccccccccchhhHHHHhHhccchhh
Q psy1174          98 GRFQLVRHVSFVDCPG----HDILMATMLNGAAVMDAALLLIGCDNAA--KTPEIVDCPGHDILMATMLNGAAVM  166 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPG----h~~f~~~~~~~~~~aD~ailVVda~~g~--~~~qt~e~l~~~il~~~~~nk~d~~  166 (182)
                             .=.+|||||    +..|...++..+..||.+++|.||.+..  .-+.....+  ...+.-.++|+|+.
T Consensus        37 -------~~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~pP~fa~~f--~~pvIGVITK~Dl~  102 (143)
T PF10662_consen   37 -------YDNTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFPPGFASMF--NKPVIGVITKIDLP  102 (143)
T ss_pred             -------cccEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCCchhhccc--CCCEEEEEECccCc
Confidence                   125699999    4688889999999999999999999861  111111111  12334559999988

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.29  E-value=3.6e-12  Score=96.55  Aligned_cols=64  Identities=9%  Similarity=0.065  Sum_probs=45.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccc----ccccccch------hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKT----PEIVDCPG------HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~----~qt~e~l~------~~il~~~~~nk~d~~~  167 (182)
                      .++.++||||+.+|...+...+..+|++|+|+|+.+..-.    .+..+.+.      ..+....++||+|+.+
T Consensus        45 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~  118 (162)
T cd04157          45 LSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPD  118 (162)
T ss_pred             EEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccC
Confidence            6799999999999988777888999999999999875200    01111111      2244556799999764

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

>KOG1143|consensus

Probab=99.29  E-value=3.9e-13  Score=116.13  Aligned_cols=134  Identities=19%  Similarity=0.180  Sum_probs=95.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCcc-----------chhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTV-----------RFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKD   86 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~-----------~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (182)
                      .+|+|+|..|+|||||++.|.....|           +|.+|.+.|.|..++.-.   ..+++.....         +.+
T Consensus       168 vRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~ev---lGFd~~g~vV---------NY~  235 (591)
T KOG1143|consen  168 VRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEV---LGFDNRGKVV---------NYA  235 (591)
T ss_pred             EEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhc---cccccccccc---------chh
Confidence            47999999999999999999844332           678999999888776532   2222222111         112


Q ss_pred             CCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhcc--ccCCeEEEEEEcCCCcccccccccchhh----HHHHhHh
Q psy1174          87 DSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGA--AVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATML  160 (182)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~--~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~  160 (182)
                      ++...+    ...+.+.+-++|||-.||.+|.++.+.|+  .-.|+|+|||+|+.| +..-|+|||+..    ++.+.++
T Consensus       236 ~~~taE----Ei~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~G-i~~tTrEHLgl~~AL~iPfFvlv  310 (591)
T KOG1143|consen  236 QNMTAE----EIVEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRG-ITWTTREHLGLIAALNIPFFVLV  310 (591)
T ss_pred             hcccHH----HHHhhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCC-CccccHHHHHHHHHhCCCeEEEE
Confidence            221110    00112347899999999999999999998  678999999999999 999999977543    3344678


Q ss_pred             ccchhhhH
Q psy1174         161 NGAAVMDA  168 (182)
Q Consensus       161 nk~d~~~~  168 (182)
                      .|+|+.+.
T Consensus       311 tK~Dl~~~  318 (591)
T KOG1143|consen  311 TKMDLVDR  318 (591)
T ss_pred             Eeeccccc
Confidence            99998864

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

Probab=99.28  E-value=1.8e-12  Score=97.06  Aligned_cols=111  Identities=15%  Similarity=0.082  Sum_probs=65.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++|+|||||+++|.+.....  .....+.+.......                             ..     
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~--~~~~~~~~~~~~~~~-----------------------------~~-----   45 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAI--VSDIAGTTRDVIEES-----------------------------ID-----   45 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEe--ccCCCCCccceEEEE-----------------------------EE-----
Confidence            468999999999999999998642110  000112222111100                             00     


Q ss_pred             CcccccceEEEeeCCChhHHHH--------HHHhccccCCeEEEEEEcCCCcccccccccch--hhHHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMA--------TMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG--HDILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~--------~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~--~~il~~~~~nk~d~~~  167 (182)
                         ....+++++||||+.++..        .....+..+|++++|+|+... ........+.  .......++||+|..+
T Consensus        46 ---~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~-~~~~~~~~~~~~~~~~vi~v~nK~D~~~  121 (157)
T cd04164          46 ---IGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRG-LDEEDLEILELPADKPIIVVLNKSDLLP  121 (157)
T ss_pred             ---eCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCC-CCHHHHHHHHhhcCCCEEEEEEchhcCC
Confidence               0126799999999865432        244566899999999999965 2221111111  2234456699999875


Q ss_pred             H
Q psy1174         168 A  168 (182)
Q Consensus       168 ~  168 (182)
                      .
T Consensus       122 ~  122 (157)
T cd04164         122 D  122 (157)
T ss_pred             c
Confidence            3

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.28  E-value=3e-12  Score=97.03  Aligned_cols=111  Identities=14%  Similarity=0.120  Sum_probs=68.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++|+|||||+++|.+....   ......++.......+.+                             .   
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~---   45 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFS---EQYKSTIGVDFKTKTIEV-----------------------------D---   45 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC---CCCCCceeeEEEEEEEEE-----------------------------C---
Confidence            36899999999999999999864321   000111111111100000                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-ccc----h---hhHHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DCP----G---HDILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~l----~---~~il~~~~~nk~d~~~  167 (182)
                         ....++.++||||+..|.......+..+|++++|+|+.+.. .-+.. ..+    .   ..++.+.+.||+|...
T Consensus        46 ---~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~-s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~  119 (164)
T smart00175       46 ---GKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRE-SFENLKNWLKELREYADPNVVIMLVGNKSDLED  119 (164)
T ss_pred             ---CEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHH-HHHHHHHHHHHHHHhCCCCCeEEEEEEchhccc
Confidence               01156889999999999988888889999999999998752 11111 011    1   1245557789999653

Rab GTPases are implicated in vesicle trafficking.

>cd01882 BMS1 Bms1

Probab=99.28  E-value=4.5e-12  Score=103.39  Aligned_cols=105  Identities=20%  Similarity=0.220  Sum_probs=69.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .++..|+++|++|+|||||+++|.+........ ...|. +       .++                          .  
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~-~~~g~-i-------~i~--------------------------~--   79 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNIS-DIKGP-I-------TVV--------------------------T--   79 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCccc-ccccc-E-------EEE--------------------------e--
Confidence            456779999999999999999998642110000 01110 0       000                          0  


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHH-hHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMA-TMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~-~~~nk~d~~  166 (182)
                            ....+++++||||+.   ..+...+..+|++++|+|+..| +..++.+++...    +... .++||+|..
T Consensus        80 ------~~~~~i~~vDtPg~~---~~~l~~ak~aDvVllviDa~~~-~~~~~~~i~~~l~~~g~p~vi~VvnK~D~~  146 (225)
T cd01882          80 ------GKKRRLTFIECPNDI---NAMIDIAKVADLVLLLIDASFG-FEMETFEFLNILQVHGFPRVMGVLTHLDLF  146 (225)
T ss_pred             ------cCCceEEEEeCCchH---HHHHHHHHhcCEEEEEEecCcC-CCHHHHHHHHHHHHcCCCeEEEEEeccccC
Confidence                  012789999999964   5567778999999999999998 777666544322    1122 378999975

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.

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

Probab=99.28  E-value=2.8e-12  Score=97.32  Aligned_cols=37  Identities=14%  Similarity=0.165  Sum_probs=33.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.++||||+.+|...+...+..+|++++|+|+.+.
T Consensus        50 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~   86 (164)
T cd04145          50 AILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDR   86 (164)
T ss_pred             EEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCH
Confidence            5688999999999988777888999999999999875

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.28  E-value=3.2e-12  Score=112.92  Aligned_cols=110  Identities=15%  Similarity=0.141  Sum_probs=69.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      +.|+++|++|+|||||+++|++.....  .....|.|.+..+..                             ..+.+  
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~--v~~~~~~t~d~~~~~-----------------------------~~~~~--   48 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAI--VADTPGVTRDRIYGE-----------------------------AEWLG--   48 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcee--eCCCCCCcccceEEE-----------------------------EEECC--
Confidence            468999999999999999998643110  011123332222211                             01112  


Q ss_pred             CcccccceEEEeeCCChhH--------HHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccchh
Q psy1174          98 GRFQLVRHVSFVDCPGHDI--------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAAV  165 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~--------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d~  165 (182)
                            ..+.++||||+.+        +......++..+|++|+|||+.++ ......+....    ......++||+|.
T Consensus        49 ------~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~-~~~~~~~~~~~l~~~~~piilv~NK~D~  121 (435)
T PRK00093         49 ------REFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAG-LTPADEEIAKILRKSNKPVILVVNKVDG  121 (435)
T ss_pred             ------cEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCC-CCHHHHHHHHHHHHcCCcEEEEEECccC
Confidence                  6799999999976        333345677899999999999987 55443332211    1334466999996


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       122 ~~  123 (435)
T PRK00093        122 PD  123 (435)
T ss_pred             cc
Confidence            54

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.28  E-value=3.9e-12  Score=98.87  Aligned_cols=109  Identities=16%  Similarity=0.122  Sum_probs=69.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|+.++|||||+++|.......      ...|+...+...                                
T Consensus        13 ~~~~kv~~~G~~~~GKTsl~~~l~~~~~~~------~~~t~~~~~~~~--------------------------------   54 (174)
T cd04153          13 RKEYKVIIVGLDNAGKTTILYQFLLGEVVH------TSPTIGSNVEEI--------------------------------   54 (174)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCCC------cCCccccceEEE--------------------------------
Confidence            345789999999999999999997422100      011111111000                                


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccc----ccccchh----hHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPE----IVDCPGH----DILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~q----t~e~l~~----~il~~~~~nk~d~~  166 (182)
                           ......+.++||||+..|.......+..+|++++|+|+.+..-...    ..+.+.+    .+....++||+|+.
T Consensus        55 -----~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~  129 (174)
T cd04153          55 -----VYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLK  129 (174)
T ss_pred             -----EECCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCC
Confidence                 0112679999999999998887788899999999999987521111    1111211    13445679999975

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.27  E-value=4.5e-12  Score=113.64  Aligned_cols=111  Identities=18%  Similarity=0.103  Sum_probs=70.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+|+|++|+|||||+++|++....  ..+...|+|.+..+...                             .+.+ 
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~--~v~~~~gvT~d~~~~~~-----------------------------~~~~-   85 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREA--VVEDVPGVTRDRVSYDA-----------------------------EWNG-   85 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCcc--cccCCCCCCEeeEEEEE-----------------------------EECC-
Confidence            357999999999999999999964211  11123344443322111                             1112 


Q ss_pred             CCcccccceEEEeeCCChh--------HHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccch
Q psy1174          97 TGRFQLVRHVSFVDCPGHD--------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAA  164 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~--------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d  164 (182)
                             ..+.++||||+.        .+...+..++..||++|+|+|+.++ ......++...    ....+.++||+|
T Consensus        86 -------~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~-~s~~~~~i~~~l~~~~~piilV~NK~D  157 (472)
T PRK03003         86 -------RRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVG-ATATDEAVARVLRRSGKPVILAANKVD  157 (472)
T ss_pred             -------cEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCC-CCHHHHHHHHHHHHcCCCEEEEEECcc
Confidence                   678999999975        3444556678899999999999988 43332222211    133446699999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      ...
T Consensus       158 l~~  160 (472)
T PRK03003        158 DER  160 (472)
T ss_pred             CCc
Confidence            753

>cd01861 Rab6 Rab6 subfamily

Probab=99.27  E-value=3.8e-12  Score=96.46  Aligned_cols=110  Identities=11%  Similarity=0.097  Sum_probs=67.7

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|++++|||||+++|++....   .+...+.+.+.....+.+                             .    
T Consensus         2 ki~liG~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~----   45 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYDTFD---NQYQATIGIDFLSKTMYL-----------------------------E----   45 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCC---ccCCCceeeeEEEEEEEE-----------------------------C----
Confidence            6899999999999999999864321   111122222211100000                             0    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhh
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVM  166 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~  166 (182)
                        ....++.++||||+..|...+...+..+|++++|+|+.++.-..+....+.+       .+....++||+|+.
T Consensus        46 --~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~  118 (161)
T cd01861          46 --DKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLS  118 (161)
T ss_pred             --CEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcc
Confidence              0115689999999999988888888999999999999875201111111111       12344568999983

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

>KOG1423|consensus

Probab=99.26  E-value=1.1e-11  Score=104.76  Aligned_cols=121  Identities=18%  Similarity=0.183  Sum_probs=72.1

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      +...++|+|||.+|+|||||.|.++|....  ...++-..|......                      +       +  
T Consensus        69 ~~k~L~vavIG~PNvGKStLtN~mig~kv~--~vS~K~~TTr~~ilg----------------------i-------~--  115 (379)
T KOG1423|consen   69 AQKSLYVAVIGAPNVGKSTLTNQMIGQKVS--AVSRKVHTTRHRILG----------------------I-------I--  115 (379)
T ss_pred             cceEEEEEEEcCCCcchhhhhhHhhCCccc--cccccccceeeeeeE----------------------E-------E--
Confidence            456789999999999999999999975321  001111111111000                      0       0  


Q ss_pred             CCCCCcccccceEEEeeCCCh------------hHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-----hHHH
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGH------------DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-----DILM  156 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh------------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-----~il~  156 (182)
                            .....++.|+||||-            ..+..+...++..||.+++|+|+..- .....-.+|..     .+..
T Consensus       116 ------ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~t-r~~l~p~vl~~l~~ys~ips  188 (379)
T KOG1423|consen  116 ------TSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASAT-RTPLHPRVLHMLEEYSKIPS  188 (379)
T ss_pred             ------ecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCC-cCccChHHHHHHHHHhcCCc
Confidence                  012289999999993            23445667788999999999999953 11111111110     1333


Q ss_pred             HhHhccchhhhHHHHhhh
Q psy1174         157 ATMLNGAAVMDAALLLIG  174 (182)
Q Consensus       157 ~~~~nk~d~~~~~~~~~~  174 (182)
                      +..+||+|......++.+
T Consensus       189 ~lvmnkid~~k~k~~Ll~  206 (379)
T KOG1423|consen  189 ILVMNKIDKLKQKRLLLN  206 (379)
T ss_pred             eeeccchhcchhhhHHhh
Confidence            456999997764444443

>cd00154 Rab Rab family

Probab=99.25  E-value=1.8e-11  Score=91.16  Aligned_cols=111  Identities=13%  Similarity=0.053  Sum_probs=67.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++++|||||+++|.+......   ..+  |....+....+ ..                        .     
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~---~~~--t~~~~~~~~~~-~~------------------------~-----   45 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDEN---YKS--TIGVDFKSKTI-EI------------------------D-----   45 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCc---cCC--ceeeeeEEEEE-EE------------------------C-----
Confidence            3689999999999999999985432110   001  11111110000 00                        0     


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----hhh---HHHHhHhccchhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----GHD---ILMATMLNGAAVM  166 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~~~---il~~~~~nk~d~~  166 (182)
                         .....+.++|+||+..|.......+..+|++++|+|+.+..-.......+    ...   ...+.++||+|..
T Consensus        46 ---~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  118 (159)
T cd00154          46 ---GKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLE  118 (159)
T ss_pred             ---CEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc
Confidence               01267899999999999988888889999999999998741011111111    111   3444568999975

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.25  E-value=6.3e-12  Score=93.80  Aligned_cols=64  Identities=8%  Similarity=0.016  Sum_probs=44.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh--------hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH--------DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~--------~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+..|...+...+..+|++++|+|+.+.....+.++.+..        .+....++||+|..+
T Consensus        44 ~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  115 (159)
T cd04159          44 VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPG  115 (159)
T ss_pred             EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC
Confidence            5689999999999998888888999999999999864111111111111        122334689999764

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.24  E-value=1.8e-12  Score=95.78  Aligned_cols=111  Identities=15%  Similarity=0.166  Sum_probs=62.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++|+|||||+++|.+...   ..+..++.+.......+..                             .   
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~---~~~~~~~~~~~~~~~~~~~-----------------------------~---   46 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKF---ITEYKPGTTRNYVTTVIEE-----------------------------D---   46 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCC---cCcCCCCceeeeeEEEEEE-----------------------------C---
Confidence            5799999999999999999986431   1121222222221110000                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHH-------HHHhccccCCeEEEEEEcCCCcccccccccchh---hHHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMA-------TMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH---DILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~-------~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~---~il~~~~~nk~d~~~  167 (182)
                         .....+.++||||+.+|..       .....+...|.+++|+++..+ ...+......+   .+....++||.|+..
T Consensus        47 ---~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~-~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  122 (161)
T TIGR00231        47 ---GKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVEEI-LEKQTKEIIHHAESNVPIILVGNKIDLRD  122 (161)
T ss_pred             ---CEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhhhhH-hHHHHHHHHHhcccCCcEEEEEEcccCCc
Confidence               0015688999999988743       344444555666666666554 22222221111   234456789999765

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.24  E-value=6.8e-12  Score=95.90  Aligned_cols=37  Identities=14%  Similarity=0.131  Sum_probs=32.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+..|.......++.+|++|+|+|+.+.
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~   85 (172)
T cd01862          49 VTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNP   85 (172)
T ss_pred             EEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCH
Confidence            5678999999999998777788999999999999876

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-

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

Probab=99.24  E-value=7e-12  Score=100.56  Aligned_cols=37  Identities=19%  Similarity=0.372  Sum_probs=33.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccC-CeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVM-DAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~a-D~ailVVda~~g  140 (182)
                      ..+.++|||||.+|...+...+..+ +++|+|||+...
T Consensus        48 ~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~   85 (203)
T cd04105          48 KKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATF   85 (203)
T ss_pred             ceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccc
Confidence            6799999999999998888888888 999999999975

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.23  E-value=7.1e-12  Score=95.24  Aligned_cols=63  Identities=16%  Similarity=0.126  Sum_probs=44.0

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccc-------hhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCP-------GHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l-------~~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+.+|.......+..+|++++|+|+.++. ..+. .+.+       ...+......||+|+..
T Consensus        49 ~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~  119 (161)
T cd04113          49 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRT-SFEALPTWLSDARALASPNIVVILVGNKSDLAD  119 (161)
T ss_pred             EEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHH-HHHHHHHHHHHHHHhCCCCCeEEEEEEchhcch
Confidence            56899999999999887777789999999999999862 1111 1111       11233445589999753

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.23  E-value=7.7e-12  Score=95.64  Aligned_cols=114  Identities=11%  Similarity=0.094  Sum_probs=69.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|+.|+|||||+++|++....     ...+.++...+....+ ..                          .
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~-----~~~~~t~~~~~~~~~~-~~--------------------------~   52 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFP-----PGQGATIGVDFMIKTV-EI--------------------------K   52 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCC-----CCCCCceeeEEEEEEE-EE--------------------------C
Confidence            34578999999999999999999842210     0122222211110000 00                          0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccc-cccc---c----hhhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPE-IVDC---P----GHDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~q-t~e~---l----~~~il~~~~~nk~d~~  166 (182)
                      +      ....+.+.||||+..|.......+..+|++++|+|+..+ ...+ ..+.   +    ...++...+.||+|+.
T Consensus        53 ~------~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~  125 (169)
T cd04114          53 G------EKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCE-ESFRCLPEWLREIEQYANNKVITILVGNKIDLA  125 (169)
T ss_pred             C------EEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCH-HHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence            0      114578899999999998888888999999999999875 2110 0011   1    1123334668999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      .
T Consensus       126 ~  126 (169)
T cd04114         126 E  126 (169)
T ss_pred             c
Confidence            3

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.23  E-value=1e-11  Score=111.30  Aligned_cols=112  Identities=13%  Similarity=0.104  Sum_probs=70.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|++....  ..+...|.|.+.....+                             .+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~--~~s~~~gtT~d~~~~~~-----------------------------~~~-  257 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERS--VVDDVAGTTVDPVDSLI-----------------------------ELG-  257 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcc--cccCCCCccCCcceEEE-----------------------------EEC-
Confidence            3578999999999999999999974311  11112333332211100                             011 


Q ss_pred             CCCcccccceEEEeeCCCh----------hHHHHH-HHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHh
Q psy1174          96 CTGRFQLVRHVSFVDCPGH----------DILMAT-MLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATML  160 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh----------~~f~~~-~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~  160 (182)
                             +..+.++||||.          +.|... ...++..+|++++|+|+.++ ...+....+.+.    .....++
T Consensus       258 -------~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~-~s~~~~~~~~~~~~~~~piIiV~  329 (472)
T PRK03003        258 -------GKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEP-ISEQDQRVLSMVIEAGRALVLAF  329 (472)
T ss_pred             -------CEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCC-CCHHHHHHHHHHHHcCCCEEEEE
Confidence                   267889999995          333322 13456899999999999998 655554433222    2244669


Q ss_pred             ccchhhh
Q psy1174         161 NGAAVMD  167 (182)
Q Consensus       161 nk~d~~~  167 (182)
                      ||+|+.+
T Consensus       330 NK~Dl~~  336 (472)
T PRK03003        330 NKWDLVD  336 (472)
T ss_pred             ECcccCC
Confidence            9999864

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

Probab=99.22  E-value=1.9e-12  Score=97.55  Aligned_cols=106  Identities=17%  Similarity=0.155  Sum_probs=61.7

Q ss_pred             EECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCccc
Q psy1174          22 TIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQ  101 (182)
Q Consensus        22 viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (182)
                      ++|++|+|||||+++|.+...   ......+.|.......+.                             +        
T Consensus         1 l~G~~~~GKssl~~~~~~~~~---~~~~~~~~t~~~~~~~~~-----------------------------~--------   40 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQ---KVGNWPGVTVEKKEGRFK-----------------------------L--------   40 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcc---cccCCCCcccccceEEEe-----------------------------e--------
Confidence            589999999999999987421   111123333332221110                             1        


Q ss_pred             ccceEEEeeCCChhHHHHH------HHhcc--ccCCeEEEEEEcCCCccccc-c-cccchhhHHHHhHhccchhhhH
Q psy1174         102 LVRHVSFVDCPGHDILMAT------MLNGA--AVMDAALLLIGCDNAAKTPE-I-VDCPGHDILMATMLNGAAVMDA  168 (182)
Q Consensus       102 ~~~~i~lIDtPGh~~f~~~------~~~~~--~~aD~ailVVda~~g~~~~q-t-~e~l~~~il~~~~~nk~d~~~~  168 (182)
                      .+..+.++||||+.+|...      ....+  ..+|++++|+|+... .... . .++.........++||+|+.+.
T Consensus        41 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~-~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~  116 (158)
T cd01879          41 GGKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNL-ERNLYLTLQLLELGLPVVVALNMIDEAEK  116 (158)
T ss_pred             CCeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcc-hhHHHHHHHHHHcCCCEEEEEehhhhccc
Confidence            1257899999998765421      11222  589999999999864 1110 0 0111122345577999998653

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.22  E-value=8.4e-12  Score=96.56  Aligned_cols=109  Identities=14%  Similarity=0.091  Sum_probs=68.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|++++|||||+++|.+.....      ...|+......+.                               
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~~~------~~~t~g~~~~~~~-------------------------------   54 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDIDT------ISPTLGFQIKTLE-------------------------------   54 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCCC------cCCccccceEEEE-------------------------------
Confidence            345679999999999999999998642110      0001110000000                               


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccch----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~----~~il~~~~~nk~d~~  166 (182)
                            ....++.++||||+..|.......+..+|++++|+|+.+.......    .+.+.    ..+....++||+|+.
T Consensus        55 ------~~~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~  128 (173)
T cd04154          55 ------YEGYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLP  128 (173)
T ss_pred             ------ECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccc
Confidence                  0126789999999998887777778899999999999875211111    11111    113344668999975

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.

>cd04163 Era Era subfamily

Probab=99.22  E-value=3.3e-11  Score=90.32  Aligned_cols=62  Identities=15%  Similarity=0.151  Sum_probs=41.1

Q ss_pred             ceEEEeeCCChhH--------HHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDI--------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~--------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~  166 (182)
                      ..+.++||||...        +.......+..+|++++|+|+..+ ............    .....++||+|..
T Consensus        51 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~-~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~  124 (168)
T cd04163          51 AQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEP-IGEGDEFILELLKKSKTPVILVLNKIDLV  124 (168)
T ss_pred             eEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCc-cCchHHHHHHHHHHhCCCEEEEEEchhcc
Confidence            5689999999743        333445567899999999999976 333322222111    2334678999977

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.21  E-value=1.3e-11  Score=95.46  Aligned_cols=64  Identities=13%  Similarity=0.146  Sum_probs=45.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----hh----hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----GH----DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~~----~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+..|.......+..+|++|+|+|+.+.......++.+    .+    ..+...+.||+|+.+
T Consensus        43 ~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~  114 (167)
T cd04161          43 YEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKN  114 (167)
T ss_pred             EEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcC
Confidence            67999999999999887777889999999999998742111111111    11    234456799999765

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.21  E-value=9.4e-12  Score=94.70  Aligned_cols=37  Identities=14%  Similarity=0.117  Sum_probs=32.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+.+|.......+..+|++++|+|+...
T Consensus        48 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   84 (164)
T smart00173       48 CLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDR   84 (164)
T ss_pred             EEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCH
Confidence            5788999999999988777788999999999999874

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.21  E-value=1.3e-11  Score=93.62  Aligned_cols=111  Identities=13%  Similarity=0.045  Sum_probs=66.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|+.++|||||+++|++...... .....+.+...  ..+.+                             .   
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~-~~~t~~~~~~~--~~v~~-----------------------------~---   46 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSEN-QESTIGAAFLT--QTVNL-----------------------------D---   46 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCC-CCCccceeEEE--EEEEE-----------------------------C---
Confidence            4689999999999999999986432110 00001110100  00000                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-------hhHHHHhHhccchhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-------HDILMATMLNGAAVM  166 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-------~~il~~~~~nk~d~~  166 (182)
                         .....+.++||||+.+|.......++.+|++++|+|+....-..+....+.       ..+..+.+.||+|..
T Consensus        47 ---~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~  119 (163)
T cd01860          47 ---DTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLE  119 (163)
T ss_pred             ---CEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence               012578899999999988877667788999999999987521111111111       112234557999976

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.21  E-value=2.2e-11  Score=114.17  Aligned_cols=113  Identities=15%  Similarity=0.094  Sum_probs=74.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|++|+|||||+++|++....  ..+...|+|.+..+..                             ..+.
T Consensus       273 ~~~~~V~IvG~~nvGKSSL~n~l~~~~~~--iv~~~pGvT~d~~~~~-----------------------------~~~~  321 (712)
T PRK09518        273 KAVGVVAIVGRPNVGKSTLVNRILGRREA--VVEDTPGVTRDRVSYD-----------------------------AEWA  321 (712)
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCce--eecCCCCeeEEEEEEE-----------------------------EEEC
Confidence            34467999999999999999999864211  1112245554432211                             0111


Q ss_pred             CCCCcccccceEEEeeCCChh--------HHHHHHHhccccCCeEEEEEEcCCCcccccccccch----hhHHHHhHhcc
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHD--------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----HDILMATMLNG  162 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~--------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~~il~~~~~nk  162 (182)
                              +..+.++||||..        .|...+..++..+|++|+|+|+.+| +.....+...    +......++||
T Consensus       322 --------~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~-~~~~d~~i~~~Lr~~~~pvIlV~NK  392 (712)
T PRK09518        322 --------GTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQVG-LTSTDERIVRMLRRAGKPVVLAVNK  392 (712)
T ss_pred             --------CEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCC-CCHHHHHHHHHHHhcCCCEEEEEEC
Confidence                    2679999999964        3566667788999999999999988 6554443222    22344567999


Q ss_pred             chhhh
Q psy1174         163 AAVMD  167 (182)
Q Consensus       163 ~d~~~  167 (182)
                      +|...
T Consensus       393 ~D~~~  397 (712)
T PRK09518        393 IDDQA  397 (712)
T ss_pred             ccccc
Confidence            99754

>KOG0052|consensus

Probab=99.21  E-value=2.5e-12  Score=111.39  Aligned_cols=63  Identities=24%  Similarity=0.439  Sum_probs=53.8

Q ss_pred             cccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc------ccccccccchhhHHHHhH--------hccchhh
Q psy1174         101 QLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA------KTPEIVDCPGHDILMATM--------LNGAAVM  166 (182)
Q Consensus       101 ~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~------~~~qt~e~l~~~il~~~~--------~nk~d~~  166 (182)
                      +..+.+++||.|||.+|.++|+.+.++||.++++|.+..|+      ..+||+|   |++|+++|        +||.|-+
T Consensus        79 t~k~~i~iid~pgh~d~~k~mitg~sqaD~avliva~~~gefEagiskngqt~e---halla~tlgv~qliv~v~k~D~~  155 (391)
T KOG0052|consen   79 TSKYYVTIIDAPGHRDFIKNMITGTSQADCAVLIVAAGTGEFEAGISKNGQTRE---HALLAFTLGVKQLIVGVNKMDST  155 (391)
T ss_pred             ceeEEEEEecCCCCCceeeeEEeeEeeeceeEEEEeeeccceeeeccccchhhh---hhhhhccccceeeeEEeeccccc
Confidence            34478999999999999999999999999999999995543      5679999   99999988        5777754

>cd04124 RabL2 RabL2 subfamily

Probab=99.20  E-value=1.5e-11  Score=94.21  Aligned_cols=62  Identities=15%  Similarity=0.076  Sum_probs=44.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccchh------hHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPGH------DILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~~------~il~~~~~nk~d~~  166 (182)
                      ..+.+.||||+..|.......+..+|++|+|+|+.++ ...+. .+.+..      .+....+.||+|+.
T Consensus        49 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~  117 (161)
T cd04124          49 ILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRK-ITYKNLSKWYEELREYRPEIPCIVVANKIDLD  117 (161)
T ss_pred             EEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCH-HHHHHHHHHHHHHHHhCCCCcEEEEEECccCc
Confidence            5788999999999998877888999999999999876 22111 111100      13445679999974

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

>cd01878 HflX HflX subfamily

Probab=99.19  E-value=4.4e-11  Score=94.94  Aligned_cols=114  Identities=21%  Similarity=0.197  Sum_probs=64.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+++|++|+|||||+++|++....   .....+.|.......+.                             .  
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~~~---~~~~~~~t~~~~~~~~~-----------------------------~--   85 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGADVY---AEDQLFATLDPTTRRLR-----------------------------L--   85 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcchhc---cCCccceeccceeEEEE-----------------------------e--
Confidence            4578999999999999999999864210   00001111111100000                             0  


Q ss_pred             CCCcccccceEEEeeCCChh---------HHHHHHHhccccCCeEEEEEEcCCCccccccc---ccch----hhHHHHhH
Q psy1174          96 CTGRFQLVRHVSFVDCPGHD---------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIV---DCPG----HDILMATM  159 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~---------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~---e~l~----~~il~~~~  159 (182)
                           .....+.++||||+.         .|.. ....+..+|++++|+|+..+....+..   +.+.    .......+
T Consensus        86 -----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~-~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV  159 (204)
T cd01878          86 -----PDGREVLLTDTVGFIRDLPHQLVEAFRS-TLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILV  159 (204)
T ss_pred             -----cCCceEEEeCCCccccCCCHHHHHHHHH-HHHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEE
Confidence                 011379999999982         2322 233457899999999998762121111   1111    11234566


Q ss_pred             hccchhhhHH
Q psy1174         160 LNGAAVMDAA  169 (182)
Q Consensus       160 ~nk~d~~~~~  169 (182)
                      +||+|.....
T Consensus       160 ~NK~Dl~~~~  169 (204)
T cd01878         160 LNKIDLLDDE  169 (204)
T ss_pred             EEccccCChH
Confidence            9999976533

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.19  E-value=2.3e-11  Score=94.28  Aligned_cols=108  Identities=14%  Similarity=0.091  Sum_probs=67.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|+.++|||||+.+|......    .  ...|+...+..  +                               
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~----~--~~~t~g~~~~~--~-------------------------------   48 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSV----T--TIPTVGFNVET--V-------------------------------   48 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCc----c--ccCCcccceEE--E-------------------------------
Confidence            4578999999999999999999742110    0  00011110000  0                               


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-cc---ccccccchh----hHHHHhHhccchhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KT---PEIVDCPGH----DILMATMLNGAAVM  166 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~---~qt~e~l~~----~il~~~~~nk~d~~  166 (182)
                          ......+.+.||||+.+|.......+..+|++|+|+|+.+.. ..   .+..+.+..    .++...+.||+|+.
T Consensus        49 ----~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  123 (168)
T cd04149          49 ----TYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLP  123 (168)
T ss_pred             ----EECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCc
Confidence                001267999999999999876666779999999999998741 11   111111111    13455679999975

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.19  E-value=1.4e-11  Score=110.03  Aligned_cols=112  Identities=16%  Similarity=0.070  Sum_probs=68.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|++....  ......|.|.+.....+.                             .. 
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a--~v~~~~gtT~d~~~~~i~-----------------------------~~-  261 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERA--IVTDIAGTTRDVIEEHIN-----------------------------LD-  261 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCc--ccCCCCCcccccEEEEEE-----------------------------EC-
Confidence            3468999999999999999999874211  001112333222111100                             01 


Q ss_pred             CCCcccccceEEEeeCCChhHHHH--------HHHhccccCCeEEEEEEcCCCcccccccccch--hhHHHHhHhccchh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMA--------TMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG--HDILMATMLNGAAV  165 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~--------~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~--~~il~~~~~nk~d~  165 (182)
                             +..+.++||||+.++..        .....+..+|++++|+|+..+ ...+..+.+.  .......++||+|+
T Consensus       262 -------g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~-~s~~~~~~l~~~~~~piiiV~NK~DL  333 (449)
T PRK05291        262 -------GIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEP-LTEEDDEILEELKDKPVIVVLNKADL  333 (449)
T ss_pred             -------CeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCC-CChhHHHHHHhcCCCCcEEEEEhhhc
Confidence                   26799999999865322        233457889999999999876 3322222111  12344567999997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       334 ~~  335 (449)
T PRK05291        334 TG  335 (449)
T ss_pred             cc
Confidence            64

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.18  E-value=1.2e-11  Score=116.75  Aligned_cols=111  Identities=17%  Similarity=0.193  Sum_probs=69.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+|+|+|...   +.....|.|++.....+                             .+.  
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~---~vgn~pGvTve~k~g~~-----------------------------~~~--   48 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQ---RVGNWAGVTVERKEGQF-----------------------------STT--   48 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCC---ccCCCCCceEeeEEEEE-----------------------------EcC--
Confidence            45799999999999999999997532   11222555554322110                             011  


Q ss_pred             CCcccccceEEEeeCCChhHHHH--------HHHh----ccccCCeEEEEEEcCCCcccc-cccccchhhHHHHhHhccc
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMA--------TMLN----GAAVMDAALLLIGCDNAAKTP-EIVDCPGHDILMATMLNGA  163 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~--------~~~~----~~~~aD~ailVVda~~g~~~~-qt~e~l~~~il~~~~~nk~  163 (182)
                            +.+++++||||+.+|..        +.+.    ....+|++++|+|+...+... .+.+...+.+.....+||+
T Consensus        49 ------~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler~l~l~~ql~e~giPvIvVlNK~  122 (772)
T PRK09554         49 ------DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIPCIVALNML  122 (772)
T ss_pred             ------ceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchhhHHHHHHHHHcCCCEEEEEEch
Confidence                  26899999999977642        1111    124789999999998762111 1112222345566779999


Q ss_pred             hhhh
Q psy1174         164 AVMD  167 (182)
Q Consensus       164 d~~~  167 (182)
                      |...
T Consensus       123 Dl~~  126 (772)
T PRK09554        123 DIAE  126 (772)
T ss_pred             hhhh
Confidence            9763

>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=99.18  E-value=4.2e-11  Score=87.10  Aligned_cols=83  Identities=22%  Similarity=0.239  Sum_probs=51.8

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|.+|+|||||+++|++....  ......+.|....+..                                     
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~--~~~~~~~~T~~~~~~~-------------------------------------   41 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLA--KVSNIPGTTRDPVYGQ-------------------------------------   41 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSS--EESSSTTSSSSEEEEE-------------------------------------
T ss_pred             CEEEECCCCCCHHHHHHHHhccccc--cccccccceeeeeeee-------------------------------------
Confidence            4899999999999999999973210  0000011111111100                                     


Q ss_pred             cccccceEEEeeCCChhH---------HHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDI---------LMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~---------f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .......+.++||||..+         ........+..+|++++|||+...
T Consensus        42 ~~~~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~~~~~   92 (116)
T PF01926_consen   42 FEYNNKKFILVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIYVVDASNP   92 (116)
T ss_dssp             EEETTEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEEEEETTSH
T ss_pred             eeeceeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEEEEECCCC
Confidence            001126788999999631         344466667899999999998763

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 ....

>cd04155 Arl3 Arl3 subfamily

Probab=99.18  E-value=3.4e-11  Score=92.52  Aligned_cols=83  Identities=13%  Similarity=0.063  Sum_probs=57.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|+.|+|||||+++|.+.....      ...|.......+                                
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~------~~~t~g~~~~~i--------------------------------   53 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISH------ITPTQGFNIKTV--------------------------------   53 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcc------cCCCCCcceEEE--------------------------------
Confidence            345779999999999999999998742110      000100000000                                


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ...+..+.++||||+..|...+...+..+|++++|+|+.+.
T Consensus        54 -----~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~   94 (173)
T cd04155          54 -----QSDGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADK   94 (173)
T ss_pred             -----EECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCH
Confidence                 01126789999999999888777778999999999999863

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.18  E-value=2.2e-11  Score=93.80  Aligned_cols=112  Identities=12%  Similarity=0.065  Sum_probs=67.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++....... ....|.......  +.+                             .  
T Consensus         4 ~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~-~~t~~~~~~~~~--~~~-----------------------------~--   49 (168)
T cd01866           4 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVH-DLTIGVEFGARM--ITI-----------------------------D--   49 (168)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCC-CCccceeEEEEE--EEE-----------------------------C--
Confidence            468999999999999999999853211000 000111111100  000                             0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----h---hhHHHHhHhccchhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----G---HDILMATMLNGAAVM  166 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~---~~il~~~~~nk~d~~  166 (182)
                          .....+.+.||||+.+|.......+..+|++++|+|+.+..-.......+    .   ..+......||+|+.
T Consensus        50 ----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~  122 (168)
T cd01866          50 ----GKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE  122 (168)
T ss_pred             ----CEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc
Confidence                01157899999999999887777889999999999998642000011111    0   123345668999976

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

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

Probab=99.17  E-value=3.6e-11  Score=94.52  Aligned_cols=109  Identities=10%  Similarity=-0.008  Sum_probs=68.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|..|+|||||+++|.+......    +  .|.......                                 
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~~----~--~t~~~~~~~---------------------------------   55 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQH----Q--PTQHPTSEE---------------------------------   55 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCccc----C--CccccceEE---------------------------------
Confidence            4457899999999999999999986321100    0  000000000                                 


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch--------hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG--------HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~--------~~il~~~~~nk~d~~  166 (182)
                          ....+.++.++||||+..+.......+..+|++++|+|+.+.......++.+.        ...+...++||+|+.
T Consensus        56 ----~~~~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~  131 (184)
T smart00178       56 ----LAIGNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAP  131 (184)
T ss_pred             ----EEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc
Confidence                00012678999999999988877777899999999999986421111211111        113345679999974

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

>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=99.17  E-value=7.7e-12  Score=99.17  Aligned_cols=63  Identities=17%  Similarity=0.354  Sum_probs=41.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhc---cccCCeEEEEEEcCCCc-ccccccccchhhHHHH-----------hHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNG---AAVMDAALLLIGCDNAA-KTPEIVDCPGHDILMA-----------TMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~---~~~aD~ailVVda~~g~-~~~qt~e~l~~~il~~-----------~~~nk~d~~~  167 (182)
                      ..+.+||+|||.++...+...   +..+-++|+|||+..-. -...+.|+| +.+|..           .+.||+|+..
T Consensus        49 ~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~Ae~L-y~iL~~~~~~~~~~piLIacNK~Dl~~  126 (181)
T PF09439_consen   49 KKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELRDVAEYL-YDILSDTEVQKNKPPILIACNKQDLFT  126 (181)
T ss_dssp             TCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHHHHHHHH-HHHHHHHHCCTT--EEEEEEE-TTSTT
T ss_pred             CEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHHHHHHHH-HHHHHhhhhccCCCCEEEEEeCccccc
Confidence            679999999999887777766   78899999999998420 112344544 223322           4578888664

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.16  E-value=7.4e-11  Score=92.52  Aligned_cols=110  Identities=15%  Similarity=0.196  Sum_probs=63.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC-ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ-TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~-~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ...++|+++|++|+|||||+++|.+.. ..  +.....|.|....+..                                
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~~~~~--~~~~~~~~t~~~~~~~--------------------------------   67 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNRKNLA--RTSKTPGRTQLINFFE--------------------------------   67 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcc--cccCCCCceeEEEEEe--------------------------------
Confidence            345789999999999999999998642 11  0111122232222100                                


Q ss_pred             CCCCCcccccceEEEeeCCCh----------hHHHHHH---HhccccCCeEEEEEEcCCCcccccccccchh----hHHH
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGH----------DILMATM---LNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILM  156 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh----------~~f~~~~---~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~  156 (182)
                              ...++.++||||+          ..|...+   ..+...++++++|+|+..+ ......+....    .+..
T Consensus        68 --------~~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~-~~~~~~~i~~~l~~~~~~~  138 (196)
T PRK00454         68 --------VNDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHP-LKELDLQMIEWLKEYGIPV  138 (196)
T ss_pred             --------cCCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCC-CCHHHHHHHHHHHHcCCcE
Confidence                    0157999999995          2333222   2333455788999998876 43332221111    1223


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      ..++||+|..+
T Consensus       139 iiv~nK~Dl~~  149 (196)
T PRK00454        139 LIVLTKADKLK  149 (196)
T ss_pred             EEEEECcccCC
Confidence            45689999764

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.16  E-value=3.2e-11  Score=91.42  Aligned_cols=63  Identities=10%  Similarity=0.090  Sum_probs=44.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccch----hhHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~----~~il~~~~~nk~d~~  166 (182)
                      ..+.+.||||+..|...+...+..+|++++|+|+.+..-....    .+.+.    .......++||+|+.
T Consensus        44 ~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  114 (160)
T cd04156          44 LSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLP  114 (160)
T ss_pred             eEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccc
Confidence            6799999999999888777778899999999999876201111    11111    113345679999974

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.16  E-value=3.3e-11  Score=92.98  Aligned_cols=112  Identities=14%  Similarity=0.107  Sum_probs=66.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|+.|+|||||+++|++...   ..+...  ++...+.... +...                            
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~---~~~~~~--t~~~~~~~~~-~~~~----------------------------   47 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRF---PERTEA--TIGVDFRERT-VEID----------------------------   47 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCC---CCcccc--ceeEEEEEEE-EEEC----------------------------
Confidence            35799999999999999999985321   111111  1111111000 0000                            


Q ss_pred             CCcccccceEEEeeCCChhHHHHH-HHhccccCCeEEEEEEcCCCcccccc-cccc----hh----hHHHHhHhccchhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMAT-MLNGAAVMDAALLLIGCDNAAKTPEI-VDCP----GH----DILMATMLNGAAVM  166 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~-~~~~~~~aD~ailVVda~~g~~~~qt-~e~l----~~----~il~~~~~nk~d~~  166 (182)
                          .....+.++||||+.+|... .......+|++++|+|+.+.. .-+. ...+    .+    .++...+.||+|+.
T Consensus        48 ----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~  122 (170)
T cd04115          48 ----GERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMA-SFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR  122 (170)
T ss_pred             ----CeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHH-HHHhHHHHHHHHHHhcCCCCCCEEEEEECccch
Confidence                01267899999999998754 444568899999999998762 1111 1111    11    13455678999975


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      .
T Consensus       123 ~  123 (170)
T cd04115         123 E  123 (170)
T ss_pred             h
Confidence            3

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.16  E-value=4.4e-11  Score=94.65  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..+|+++|++|+|||||+++|.+.
T Consensus         9 ~~~i~i~G~~~~GKSsLin~l~~~   32 (201)
T PRK04213          9 KPEIVFVGRSNVGKSTLVRELTGK   32 (201)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999864

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.15  E-value=3.8e-11  Score=112.60  Aligned_cols=112  Identities=13%  Similarity=0.045  Sum_probs=70.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|++....  ......|.|.+.....                             ..+  
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~--~v~~~~gtT~d~~~~~-----------------------------~~~--  495 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERA--VVNDLAGTTRDPVDEI-----------------------------VEI--  495 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcccc--ccCCCCCCCcCcceeE-----------------------------EEE--
Confidence            3478999999999999999999974311  0011223332221100                             001  


Q ss_pred             CCCcccccceEEEeeCCChh---------HHHHH--HHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHD---------ILMAT--MLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATML  160 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~---------~f~~~--~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~  160 (182)
                            .+..+.++||||..         .|...  ...++..+|++++|+|+.++ ...+....+...    .....++
T Consensus       496 ------~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~-~s~~~~~i~~~~~~~~~piIiV~  568 (712)
T PRK09518        496 ------DGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQP-ISEQDLKVMSMAVDAGRALVLVF  568 (712)
T ss_pred             ------CCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCC-CCHHHHHHHHHHHHcCCCEEEEE
Confidence                  12678899999952         23322  23456889999999999998 666655433221    2344679


Q ss_pred             ccchhhh
Q psy1174         161 NGAAVMD  167 (182)
Q Consensus       161 nk~d~~~  167 (182)
                      ||+|+.+
T Consensus       569 NK~DL~~  575 (712)
T PRK09518        569 NKWDLMD  575 (712)
T ss_pred             EchhcCC
Confidence            9999865

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.15  E-value=3.2e-11  Score=91.22  Aligned_cols=64  Identities=13%  Similarity=0.078  Sum_probs=46.0

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccch----hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPG----HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~----~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+.+|.......++.+|++++|+|.....    ...+....+.    ..++...++||+|..+
T Consensus        48 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~  119 (164)
T cd04139          48 VQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLED  119 (164)
T ss_pred             EEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccc
Confidence            56899999999999988888899999999999987641    1111111111    2345567799999765

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.15  E-value=8.4e-11  Score=90.32  Aligned_cols=86  Identities=13%  Similarity=0.044  Sum_probs=56.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||++++.+....   .+.............+.+                             .  
T Consensus         3 ~~ki~vvG~~~~GKSsl~~~~~~~~f~---~~~~~t~~~~~~~~~~~~-----------------------------~--   48 (167)
T cd01867           3 LFKLLLIGDSGVGKSCLLLRFSEDSFN---PSFISTIGIDFKIRTIEL-----------------------------D--   48 (167)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCcCC---cccccCccceEEEEEEEE-----------------------------C--
Confidence            468999999999999999999853211   000000001110000000                             0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....+.+.||||+.+|.......+..+|++++|+|+.++
T Consensus        49 ----~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~   88 (167)
T cd01867          49 ----GKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDE   88 (167)
T ss_pred             ----CEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCH
Confidence                0115688999999999888777777999999999999876

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

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

Probab=99.15  E-value=4.6e-11  Score=92.58  Aligned_cols=62  Identities=13%  Similarity=0.128  Sum_probs=43.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-----cccch----hhHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-----VDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-----~e~l~----~~il~~~~~nk~d~~  166 (182)
                      ..+.++||||+.+|..........+|++++|+|+.+.. ..+.     ...++    ..++...+.||+|..
T Consensus        49 ~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  119 (180)
T cd04137          49 YHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRK-SFEVVKVIYDKILDMLGKESVPIVLVGNKSDLH  119 (180)
T ss_pred             EEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHH-HHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhh
Confidence            56889999999999877777888999999999998752 1111     11111    112345669999975

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

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

Probab=99.15  E-value=4.9e-11  Score=90.33  Aligned_cols=106  Identities=11%  Similarity=0.091  Sum_probs=66.6

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|+.|+|||||+++|.+.....      ...|.......+.                                   
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~~------~~~t~~~~~~~~~-----------------------------------   39 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVVT------TIPTIGFNVETVE-----------------------------------   39 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCCC------CCCCcCcceEEEE-----------------------------------
Confidence            48999999999999999998643110      0011111110000                                   


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cch----hhHHHHhHhccchhhh
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPG----HDILMATMLNGAAVMD  167 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~----~~il~~~~~nk~d~~~  167 (182)
                        .....+.++||||+..|.......+..+|++++|+|+..+.......+    .+.    ...+...+.||+|...
T Consensus        40 --~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~  114 (158)
T cd00878          40 --YKNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPG  114 (158)
T ss_pred             --ECCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcc
Confidence              012679999999999987777777789999999999997521111111    111    1234456689999753

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.14  E-value=8.1e-11  Score=89.21  Aligned_cols=112  Identities=15%  Similarity=0.139  Sum_probs=67.5

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|..++|||||+++|.+....   .+..+  |+...+....+ ...                              
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~~~~---~~~~~--t~~~~~~~~~~-~~~------------------------------   45 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKGIFT---KDYKK--TIGVDFLEKQI-FLR------------------------------   45 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC---CCCCC--cEEEEEEEEEE-EEc------------------------------
Confidence            5899999999999999999853211   11111  22111111000 000                              


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccch------hhHHHHhHhccchhhh
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPG------HDILMATMLNGAAVMD  167 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~------~~il~~~~~nk~d~~~  167 (182)
                      .......+.++||||+.+|.......++.+|++++|+|+.+.. .-+. ...+.      ..++...+.||+|+.+
T Consensus        46 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~-s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~  120 (162)
T cd04106          46 QSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRE-SFEAIESWKEKVEAECGDIPMVLVQTKIDLLD  120 (162)
T ss_pred             CCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHH-HHHHHHHHHHHHHHhCCCCCEEEEEEChhccc
Confidence            0001267899999999999887777889999999999998752 1111 00000      0133456689999754

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.14  E-value=3.6e-11  Score=104.28  Aligned_cols=112  Identities=18%  Similarity=0.178  Sum_probs=65.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|+++|++|+|||||+++|++....   .+...+.|.+.....+.+                               
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~---v~~~~~tT~d~~~~~i~~-------------------------------  233 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVY---AADQLFATLDPTTRRLDL-------------------------------  233 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCcee---eccCCccccCCEEEEEEe-------------------------------
Confidence            3467999999999999999999974210   001112222221110000                               


Q ss_pred             CCCcccccceEEEeeCCCh---------hHHHHHHHhccccCCeEEEEEEcCCCcccccc---cccchh----hHHHHhH
Q psy1174          96 CTGRFQLVRHVSFVDCPGH---------DILMATMLNGAAVMDAALLLIGCDNAAKTPEI---VDCPGH----DILMATM  159 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh---------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt---~e~l~~----~il~~~~  159 (182)
                           ..+.++.++||||.         +.|.. +...+..||++++|+|+.++....+.   .+.+..    ......+
T Consensus       234 -----~~~~~i~l~DT~G~~~~l~~~lie~f~~-tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV  307 (351)
T TIGR03156       234 -----PDGGEVLLTDTVGFIRDLPHELVAAFRA-TLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLV  307 (351)
T ss_pred             -----CCCceEEEEecCcccccCCHHHHHHHHH-HHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEE
Confidence                 01257999999997         23433 34457899999999999876211111   011111    1234567


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|+.+
T Consensus       308 ~NK~Dl~~  315 (351)
T TIGR03156       308 YNKIDLLD  315 (351)
T ss_pred             EEeecCCC
Confidence            99999865

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).

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.14  E-value=4.7e-11  Score=105.53  Aligned_cols=114  Identities=16%  Similarity=0.110  Sum_probs=71.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+++++|+||+|||||+|+|++....  -...-.|.|.+.--..+.+                             . 
T Consensus       216 ~G~kvvIiG~PNvGKSSLLNaL~~~d~A--IVTdI~GTTRDviee~i~i-----------------------------~-  263 (454)
T COG0486         216 EGLKVVIIGRPNVGKSSLLNALLGRDRA--IVTDIAGTTRDVIEEDINL-----------------------------N-  263 (454)
T ss_pred             cCceEEEECCCCCcHHHHHHHHhcCCce--EecCCCCCccceEEEEEEE-----------------------------C-
Confidence            4467999999999999999999974311  0001133333322111111                             2 


Q ss_pred             CCCcccccceEEEeeCCChh---HHH-----HHHHhccccCCeEEEEEEcCCCcccccccccch---hhHHHHhHhccch
Q psy1174          96 CTGRFQLVRHVSFVDCPGHD---ILM-----ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG---HDILMATMLNGAA  164 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~---~f~-----~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~---~~il~~~~~nk~d  164 (182)
                             +.++.++||.|-+   +..     ......+..||.+++|+|+..+ ...+..+.+.   .......++||+|
T Consensus       264 -------G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~-~~~~d~~~~~~~~~~~~~i~v~NK~D  335 (454)
T COG0486         264 -------GIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQP-LDKEDLALIELLPKKKPIIVVLNKAD  335 (454)
T ss_pred             -------CEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCC-CchhhHHHHHhcccCCCEEEEEechh
Confidence                   3889999999964   222     2234556999999999999986 4444444332   1112246699999


Q ss_pred             hhhHH
Q psy1174         165 VMDAA  169 (182)
Q Consensus       165 ~~~~~  169 (182)
                      ++...
T Consensus       336 L~~~~  340 (454)
T COG0486         336 LVSKI  340 (454)
T ss_pred             ccccc
Confidence            88643

>cd00879 Sar1 Sar1 subfamily

Probab=99.13  E-value=1e-10  Score=91.51  Aligned_cols=109  Identities=11%  Similarity=0.056  Sum_probs=67.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +....|+++|+.|+|||||+++|.+.....      ...|.......+                             .  
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~~------~~~T~~~~~~~i-----------------------------~--   59 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLAQ------HVPTLHPTSEEL-----------------------------T--   59 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCcc------cCCccCcceEEE-----------------------------E--
Confidence            345779999999999999999998532110      000110000000                             0  


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccc----cccccch----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTP----EIVDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~----qt~e~l~----~~il~~~~~nk~d~~  166 (182)
                            .....+.++||||+..|.......+..+|++++|+|+.+.....    ...+.++    .......+.||+|+.
T Consensus        60 ------~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~  133 (190)
T cd00879          60 ------IGNIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLP  133 (190)
T ss_pred             ------ECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCC
Confidence                  01267899999999998876667778999999999998641111    1111111    113445668999975

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.13  E-value=5.2e-11  Score=91.32  Aligned_cols=64  Identities=9%  Similarity=0.121  Sum_probs=43.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccchh----hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPGH----DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~~----~il~~~~~nk~d~~~  167 (182)
                      .++.+.||||+..|..........+|++|+|+|+.+..-..+..    +.+.+    ..+...+.||+|+.+
T Consensus        44 ~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  115 (159)
T cd04150          44 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPN  115 (159)
T ss_pred             EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCC
Confidence            67999999999998887777789999999999998631011111    11111    133456699999753

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.13  E-value=5.2e-11  Score=94.53  Aligned_cols=64  Identities=16%  Similarity=0.104  Sum_probs=43.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cch----hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPG----HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~----~~il~~~~~nk~d~~~  167 (182)
                      ..++++||||+..|.......+..+|++|+|+|+.++.-......    .+.    ..++.+.++||+|...
T Consensus        47 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  118 (198)
T cd04147          47 LTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLE  118 (198)
T ss_pred             EEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccccc
Confidence            568999999999998776777899999999999987521111111    110    1134456689999753

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.12  E-value=2.1e-10  Score=91.06  Aligned_cols=84  Identities=19%  Similarity=0.164  Sum_probs=51.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|++|+|||||+|+|+|...... .....+.|.......                             ..+.   
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~-~~~~~~~T~~~~~~~-----------------------------~~~~---   47 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFES-KLSASSVTKTCQKES-----------------------------AVWD---   47 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCcccc-ccCCCCcccccceee-----------------------------EEEC---
Confidence            4799999999999999999997532100 000112222221110                             1112   


Q ss_pred             CcccccceEEEeeCCChhHH-------HHHHHh----ccccCCeEEEEEEcCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDIL-------MATMLN----GAAVMDAALLLIGCDN  139 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f-------~~~~~~----~~~~aD~ailVVda~~  139 (182)
                           ++++++|||||..+.       ..++..    +...+|++|+|+++..
T Consensus        48 -----~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~   95 (196)
T cd01852          48 -----GRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGR   95 (196)
T ss_pred             -----CeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCC
Confidence                 278999999997543       223332    2356899999999875

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).

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.12  E-value=3.3e-11  Score=116.18  Aligned_cols=119  Identities=18%  Similarity=0.268  Sum_probs=81.8

Q ss_pred             EEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcc
Q psy1174          21 GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRF  100 (182)
Q Consensus        21 ~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (182)
                      ++++|    ||||+++|.++..   .....+|+|+.++.+.+.+-..+ ..|..        ......          ..
T Consensus       469 ~~~~~----KTtLLD~iR~t~v---~~~EaGGITQ~IGa~~v~~~~~~-~~~~~--------~~~~~~----------~~  522 (1049)
T PRK14845        469 GILVH----NTTLLDKIRKTRV---AKKEAGGITQHIGATEIPIDVIK-KICGP--------LLKLLK----------AE  522 (1049)
T ss_pred             eeecc----cccHHHHHhCCCc---ccccCCCceeccceEEEEecccc-ccccc--------cccccc----------cc
Confidence            45555    9999999998654   45567999999998654431000 00000        000000          00


Q ss_pred             cccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhh
Q psy1174         101 QLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVM  166 (182)
Q Consensus       101 ~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~  166 (182)
                      .....++|+|||||.+|...+.+++..+|++++|||+.+| +..|+.+++.++    +.....+||+|..
T Consensus       523 ~~~p~i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~G-i~~qT~e~I~~lk~~~iPiIVViNKiDL~  591 (1049)
T PRK14845        523 IKIPGLLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEG-FKPQTIEAINILRQYKTPFVVAANKIDLI  591 (1049)
T ss_pred             CCcCcEEEEECCCcHHHHHHHHhhcccCCEEEEEEECccc-CCHhHHHHHHHHHHcCCCEEEEEECCCCc
Confidence            0113489999999999999888999999999999999999 999999866543    2234679999975

>cd01868 Rab11_like Rab11-like

Probab=99.12  E-value=4.8e-11  Score=91.03  Aligned_cols=85  Identities=15%  Similarity=0.089  Sum_probs=56.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|.+++|||||+++|.+....   .+..+..+.......+.+                             .   
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~~~---~~~~~t~~~~~~~~~~~~-----------------------------~---   48 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNEFN---LDSKSTIGVEFATRSIQI-----------------------------D---   48 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC---CCCCCccceEEEEEEEEE-----------------------------C---
Confidence            57999999999999999999854311   010111111111100000                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....+.++||||...|.......+..+|++|+|+|+.+.
T Consensus        49 ---~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   88 (165)
T cd01868          49 ---GKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKK   88 (165)
T ss_pred             ---CEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCH
Confidence               0114688999999999888777777899999999999864

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

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

Probab=99.12  E-value=7.9e-11  Score=91.76  Aligned_cols=108  Identities=14%  Similarity=0.122  Sum_probs=67.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHh-cCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS-GVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~-g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...+|+++|..++|||||+.+|. +.....       ..|+...+...                                
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~~~-------~~t~~~~~~~~--------------------------------   52 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESVTT-------IPTIGFNVETV--------------------------------   52 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCCCc-------CCccccceEEE--------------------------------
Confidence            35789999999999999999996 321110       00111111000                                


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----hh----hHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----GH----DILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~~----~il~~~~~nk~d~~  166 (182)
                           ......+.+.||||+..|.......+..+|++|+|+|+.+..-.....+.+    .+    .+....+.||+|+.
T Consensus        53 -----~~~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~  127 (175)
T smart00177       53 -----TYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLP  127 (175)
T ss_pred             -----EECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcc
Confidence                 011267999999999999887666779999999999998642111112211    11    12345679999975


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       128 ~  128 (175)
T smart00177      128 D  128 (175)
T ss_pred             c
Confidence            3

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).

>cd04123 Rab21 Rab21 subfamily

Probab=99.11  E-value=7.7e-11  Score=88.77  Aligned_cols=64  Identities=16%  Similarity=0.122  Sum_probs=42.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc-------cchhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD-------CPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e-------~l~~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+..|.......+..+|++++|+|+.++....+...       .....+....++||+|+..
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~  119 (162)
T cd04123          49 IDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLER  119 (162)
T ss_pred             EEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            568999999998888766666788999999999987621111111       1111233445689999763

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

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.11  E-value=5.6e-11  Score=104.42  Aligned_cols=82  Identities=23%  Similarity=0.198  Sum_probs=52.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      -.|+++|.+|+|||||+++|++...   +.....+.|.......+..                                 
T Consensus       160 adValVG~PNaGKSTLln~Lt~~k~---~vs~~p~TT~~p~~Giv~~---------------------------------  203 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIRAVSAAKP---KVADYPFTTLVPNLGVVRV---------------------------------  203 (390)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhCCcc---cccCCCCCccCcEEEEEEe---------------------------------
Confidence            3699999999999999999986421   1111112222111110000                                 


Q ss_pred             CcccccceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcC
Q psy1174          98 GRFQLVRHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCD  138 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~  138 (182)
                         .....+.|+||||...       +...+.+.+..+|++++|||+.
T Consensus       204 ---~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s  248 (390)
T PRK12298        204 ---DDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIA  248 (390)
T ss_pred             ---CCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccC
Confidence               0114599999999742       4455677889999999999987

>cd04112 Rab26 Rab26 subfamily

Probab=99.11  E-value=5.6e-11  Score=93.74  Aligned_cols=63  Identities=21%  Similarity=0.207  Sum_probs=43.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcc----c---ccccccchhhHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAK----T---PEIVDCPGHDILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~----~---~qt~e~l~~~il~~~~~nk~d~~  166 (182)
                      ..+.++||||+.+|.......+..+|++|+|+|+....-    .   .+..+.....++.....||+|+.
T Consensus        50 ~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~  119 (191)
T cd04112          50 VKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMS  119 (191)
T ss_pred             EEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccch
Confidence            578999999999998877777888999999999986410    0   01111111123444668999975

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.

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

Probab=99.11  E-value=6e-11  Score=90.58  Aligned_cols=23  Identities=22%  Similarity=0.209  Sum_probs=21.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ++|+++|++|+|||||+++|++.
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~   23 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRA   23 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcC
Confidence            47899999999999999999864

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.11  E-value=7.3e-11  Score=105.25  Aligned_cols=111  Identities=11%  Similarity=0.034  Sum_probs=67.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|++.....  .....|.|.+.....+.+                             . 
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~ai--vs~~pgtTrd~~~~~i~~-----------------------------~-  249 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAI--VSDIKGTTRDVVEGDFEL-----------------------------N-  249 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcc--cCCCCCcEEEEEEEEEEE-----------------------------C-
Confidence            45689999999999999999999742110  111234444432211111                             1 


Q ss_pred             CCCcccccceEEEeeCCChhHHHH--------HHHhccccCCeEEEEEEcCCCcccccccccch----hhHHHHhHhccc
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMA--------TMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----HDILMATMLNGA  163 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~--------~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~~il~~~~~nk~  163 (182)
                             +..+.++||||..++..        .....+..+|++++|+|+..+ ...+.. .+.    .......++||+
T Consensus       250 -------g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~-~s~~~~-~l~~~~~~~~piIlV~NK~  320 (442)
T TIGR00450       250 -------GILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQP-LTKDDF-LIIDLNKSKKPFILVLNKI  320 (442)
T ss_pred             -------CEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCC-CChhHH-HHHHHhhCCCCEEEEEECc
Confidence                   26789999999854332        123566889999999999876 322111 111    112234668999


Q ss_pred             hhhh
Q psy1174         164 AVMD  167 (182)
Q Consensus       164 d~~~  167 (182)
                      |+..
T Consensus       321 Dl~~  324 (442)
T TIGR00450       321 DLKI  324 (442)
T ss_pred             cCCC
Confidence            9764

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.

>cd00880 Era_like Era (E

Probab=99.10  E-value=4.5e-11  Score=88.27  Aligned_cols=63  Identities=17%  Similarity=0.134  Sum_probs=42.9

Q ss_pred             ceEEEeeCCChhHHH-------HHHHhccccCCeEEEEEEcCCCcccccccc----cchhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILM-------ATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~-------~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+.++.       ......+..+|++++|+|+..+ .......    ...+......++||.|...
T Consensus        45 ~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~-~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~  118 (163)
T cd00880          45 GPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLR-ADEEEEKLLELLRERGKPVLLVLNKIDLLP  118 (163)
T ss_pred             CcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCC-CCHHHHHHHHHHHhcCCeEEEEEEccccCC
Confidence            679999999986543       3344567899999999999987 3333332    1112233446799999765

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.10  E-value=8.4e-11  Score=92.43  Aligned_cols=110  Identities=13%  Similarity=0.079  Sum_probs=67.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|..++|||||+.+|.......      ...|+...+..+                                
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~~------~~pt~g~~~~~~--------------------------------   56 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIVT------TIPTIGFNVETV--------------------------------   56 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCcc------ccCCcceeEEEE--------------------------------
Confidence            344689999999999999999997321100      001111111000                                


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccchh----hHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPGH----DILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~~----~il~~~~~nk~d~~  166 (182)
                           ......+.+.||||+..|..........+|++|+|+|+.+..-....    .+.+.+    .++...+.||+|+.
T Consensus        57 -----~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~  131 (181)
T PLN00223         57 -----EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP  131 (181)
T ss_pred             -----EECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCC
Confidence                 01126799999999999988766777899999999999864211111    111111    13344568999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       132 ~  132 (181)
T PLN00223        132 N  132 (181)
T ss_pred             C
Confidence            4

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.10  E-value=4.2e-10  Score=85.19  Aligned_cols=85  Identities=20%  Similarity=0.201  Sum_probs=56.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++++|||||+++|.+.....   +  ...|+...+....+ ..                          .   
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~---~--~~~t~~~~~~~~~~-~~--------------------------~---   45 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVS---K--YLPTIGIDYGVKKV-SV--------------------------R---   45 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCC---C--CCCccceeEEEEEE-EE--------------------------C---
Confidence            368999999999999999998643210   0  11111111110000 00                          0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....++++||||+..|..........+|++|+|+|+.+.
T Consensus        46 ---~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~   85 (168)
T cd04119          46 ---NKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDR   85 (168)
T ss_pred             ---CeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCH
Confidence               0126789999999999988777777899999999999864

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.

>cd01865 Rab3 Rab3 subfamily

Probab=99.09  E-value=8.4e-11  Score=90.14  Aligned_cols=64  Identities=11%  Similarity=0.052  Sum_probs=44.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-------hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                      ..+.+.||||+.+|.......++.+|++++|+|+.+..-..+..+.+.       .......+.||+|+..
T Consensus        50 ~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~  120 (165)
T cd01865          50 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMED  120 (165)
T ss_pred             EEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCc
Confidence            568999999999998877788899999999999986421111111111       1123456689999754

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

>PRK11058 GTPase HflX; Provisional

Probab=99.09  E-value=5.8e-11  Score=105.42  Aligned_cols=110  Identities=15%  Similarity=0.150  Sum_probs=64.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      +.|+++|.+|+|||||+|+|++....   .....+.|.+.....+.+                             .   
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~---v~~~~~tTld~~~~~i~l-----------------------------~---  242 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVY---AADQLFATLDPTLRRIDV-----------------------------A---  242 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCcee---eccCCCCCcCCceEEEEe-----------------------------C---
Confidence            56999999999999999999863210   011112222221100000                             0   


Q ss_pred             CcccccceEEEeeCCChhH---------HHHHHHhccccCCeEEEEEEcCCCcccccc---cccchh----hHHHHhHhc
Q psy1174          98 GRFQLVRHVSFVDCPGHDI---------LMATMLNGAAVMDAALLLIGCDNAAKTPEI---VDCPGH----DILMATMLN  161 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~---------f~~~~~~~~~~aD~ailVVda~~g~~~~qt---~e~l~~----~il~~~~~n  161 (182)
                          ....+.++||||..+         |.. +...+..||++|+|+|+.+.....+.   .+.+..    .+....++|
T Consensus       243 ----~~~~~~l~DTaG~~r~lp~~lve~f~~-tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~N  317 (426)
T PRK11058        243 ----DVGETVLADTVGFIRHLPHDLVAAFKA-TLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMN  317 (426)
T ss_pred             ----CCCeEEEEecCcccccCCHHHHHHHHH-HHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEE
Confidence                013688999999722         433 45566889999999999876211111   111111    234456799


Q ss_pred             cchhhh
Q psy1174         162 GAAVMD  167 (182)
Q Consensus       162 k~d~~~  167 (182)
                      |+|+.+
T Consensus       318 KiDL~~  323 (426)
T PRK11058        318 KIDMLD  323 (426)
T ss_pred             cccCCC
Confidence            999764

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.07  E-value=1.5e-10  Score=92.56  Aligned_cols=113  Identities=18%  Similarity=0.227  Sum_probs=74.1

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCC-ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQ-TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFP   90 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~-~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (182)
                      +.+....-|+++|++|+|||||+|+|++.. ..  +.+...|.|..+.+.     ..+                      
T Consensus        19 ~P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LA--rtSktPGrTq~iNff-----~~~----------------------   69 (200)
T COG0218          19 YPEDDLPEIAFAGRSNVGKSSLINALTNQKNLA--RTSKTPGRTQLINFF-----EVD----------------------   69 (200)
T ss_pred             CCCCCCcEEEEEccCcccHHHHHHHHhCCccee--ecCCCCCccceeEEE-----Eec----------------------
Confidence            333455679999999999999999999743 11  233446777777662     111                      


Q ss_pred             ccCCCCCCcccccceEEEeeCCChh----------H---HHHHHHhccccCCeEEEEEEcCCCcccccccccchh----h
Q psy1174          91 CLRSSCTGRFQLVRHVSFVDCPGHD----------I---LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----D  153 (182)
Q Consensus        91 ~~~~~~~~~~~~~~~i~lIDtPGh~----------~---f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~  153 (182)
                                   ..+.|||-||+.          .   ++.+-+..=....+++++||+..+ +....+|.+..    .
T Consensus        70 -------------~~~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~-~~~~D~em~~~l~~~~  135 (200)
T COG0218          70 -------------DELRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHP-PKDLDREMIEFLLELG  135 (200)
T ss_pred             -------------CcEEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheEEEEEEECCCC-CcHHHHHHHHHHHHcC
Confidence                         348999999973          1   222222222446789999999998 76666663322    2


Q ss_pred             HHHHhHhccchhhh
Q psy1174         154 ILMATMLNGAAVMD  167 (182)
Q Consensus       154 il~~~~~nk~d~~~  167 (182)
                      +....++||+|.++
T Consensus       136 i~~~vv~tK~DKi~  149 (200)
T COG0218         136 IPVIVVLTKADKLK  149 (200)
T ss_pred             CCeEEEEEccccCC
Confidence            33446799999765

>cd04110 Rab35 Rab35 subfamily

Probab=99.07  E-value=1.1e-10  Score=92.88  Aligned_cols=113  Identities=11%  Similarity=0.039  Sum_probs=67.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|+.|+|||||+++|.+..-.   .+  ...|+...+....+ ..                          .  
T Consensus         6 ~~kivvvG~~~vGKTsli~~l~~~~~~---~~--~~~t~~~~~~~~~~-~~--------------------------~--   51 (199)
T cd04110           6 LFKLLIIGDSGVGKSSLLLRFADNTFS---GS--YITTIGVDFKIRTV-EI--------------------------N--   51 (199)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCC---CC--cCccccceeEEEEE-EE--------------------------C--
Confidence            568999999999999999999853211   00  01111111100000 00                          0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh------hHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH------DILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~------~il~~~~~nk~d~~~  167 (182)
                          .....+.++||||+..|.......+..+|++++|+|+.+..-.....+.+..      .++...+.||+|+..
T Consensus        52 ----~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~  124 (199)
T cd04110          52 ----GERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPE  124 (199)
T ss_pred             ----CEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccc
Confidence                0115688999999999988777788889999999999875211111111111      123345689999753

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.07  E-value=5.8e-10  Score=85.18  Aligned_cols=86  Identities=9%  Similarity=0.068  Sum_probs=56.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|+.|+|||||+++|.+....   .+.....+.......+.+                             .  
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~---~~~~~t~~~~~~~~~~~~-----------------------------~--   47 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYT---ESYISTIGVDFKIRTIEL-----------------------------D--   47 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCC---CCCCCccceeEEEEEEEE-----------------------------C--
Confidence            357999999999999999999853211   000011111111100000                             0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ....++.++||||+.+|.......+..+|++|+|+|+.+.
T Consensus        48 ----~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~   87 (166)
T cd01869          48 ----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQ   87 (166)
T ss_pred             ----CEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCH
Confidence                0125789999999999988777778899999999999875

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.06  E-value=7.8e-10  Score=84.06  Aligned_cols=64  Identities=8%  Similarity=0.038  Sum_probs=44.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cchh----hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPGH----DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~~----~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+.+|.......+..+|++|+|+|+.+..-.....+    .+..    ..+...++||+|+.+
T Consensus        43 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~  114 (158)
T cd04151          43 LKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPG  114 (158)
T ss_pred             EEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCC
Confidence            679999999999998877777899999999999986410011111    1111    134556799999753

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.06  E-value=1.3e-10  Score=84.57  Aligned_cols=63  Identities=14%  Similarity=0.111  Sum_probs=45.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc---------cchhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD---------CPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e---------~l~~~il~~~~~nk~d~~~  167 (182)
                      ..+.++|+||+..+.......+..+|++++|+|+..+ .......         ..........++||+|...
T Consensus        45 ~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~  116 (157)
T cd00882          45 VKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDR-ESFENVKEWLLLILINKEGENIPIILVGNKIDLPE  116 (157)
T ss_pred             EEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCH-HHHHHHHHHHHHHHHhhccCCCcEEEEEecccccc
Confidence            6799999999999888777888999999999999986 2222111         1112233446689999764

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.05  E-value=8e-10  Score=84.87  Aligned_cols=63  Identities=14%  Similarity=0.049  Sum_probs=43.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-ccc----ch---hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDC----PG---HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~----l~---~~il~~~~~nk~d~~~  167 (182)
                      .+++++||||+..+...+...+..+|++++|+|+.++ ..-+. .+.    +.   ..+......||+|+.+
T Consensus        47 ~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~-~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~  117 (166)
T cd01893          47 VPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRP-STLERIRTKWLPLIRRLGVKVPIILVGNKSDLRD  117 (166)
T ss_pred             EEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCH-HHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccc
Confidence            6799999999998877777778999999999999875 21111 010    10   0123345589999764

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.04  E-value=1.7e-10  Score=88.23  Aligned_cols=37  Identities=11%  Similarity=0.146  Sum_probs=30.0

Q ss_pred             ceEEEeeCCChhH-HHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDI-LMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~-f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+.. +.......+..+|++|+|+|+.+.
T Consensus        47 ~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~   84 (165)
T cd04146          47 VSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDR   84 (165)
T ss_pred             EEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCH
Confidence            4688999999985 344456677899999999999876

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

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

Probab=99.01  E-value=2.2e-10  Score=88.43  Aligned_cols=62  Identities=10%  Similarity=0.011  Sum_probs=41.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccchh------hHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPGH------DILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~~------~il~~~~~nk~d~~  166 (182)
                      ..+.+.||||+.+|..........+|++|+|+|+.++. .-+. ...+..      .++...+.||+|+.
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~  117 (166)
T cd00877          49 IRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRV-TYKNVPNWHRDLVRVCGNIPIVLCGNKVDIK  117 (166)
T ss_pred             EEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHH-HHHHHHHHHHHHHHhCCCCcEEEEEEchhcc
Confidence            57889999999988765555668899999999999762 1111 111100      13444668999975

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

>cd00876 Ras Ras family

Probab=99.01  E-value=2.1e-09  Score=80.73  Aligned_cols=64  Identities=16%  Similarity=0.120  Sum_probs=43.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc-------h-hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP-------G-HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l-------~-~~il~~~~~nk~d~~~  167 (182)
                      .++.++|+||+..+.......+..+|++++|+|.....-........       . .......++||+|...
T Consensus        47 ~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  118 (160)
T cd00876          47 YTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLEN  118 (160)
T ss_pred             EEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccc
Confidence            67899999999998888778889999999999998652111111100       0 1233446689999764

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

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.00  E-value=2.5e-10  Score=97.25  Aligned_cols=109  Identities=12%  Similarity=0.112  Sum_probs=65.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|.|.|++|+|||||+++|++....          .....|++-.+                              ..
T Consensus       168 ~pTivVaG~PNVGKSSlv~~lT~AkpE----------vA~YPFTTK~i------------------------------~v  207 (346)
T COG1084         168 LPTIVVAGYPNVGKSSLVRKLTTAKPE----------VAPYPFTTKGI------------------------------HV  207 (346)
T ss_pred             CCeEEEecCCCCcHHHHHHHHhcCCCc----------cCCCCccccce------------------------------eE
Confidence            457999999999999999999864211          00111111000                              01


Q ss_pred             CCcccccceEEEeeCCChh--------HHHHHHHhcc-ccCCeEEEEEEcCCCcccccccc---cchhh------HHHHh
Q psy1174          97 TGRFQLVRHVSFVDCPGHD--------ILMATMLNGA-AVMDAALLLIGCDNAAKTPEIVD---CPGHD------ILMAT  158 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~--------~f~~~~~~~~-~~aD~ailVVda~~g~~~~qt~e---~l~~~------il~~~  158 (182)
                      ..++....++-+|||||.-        ..-.+.+.|+ ...+++++++|+.+-  ++.+.|   +|-+-      ...+.
T Consensus       208 Ghfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~--cgy~lE~Q~~L~~eIk~~f~~p~v~  285 (346)
T COG1084         208 GHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSET--CGYSLEEQISLLEEIKELFKAPIVV  285 (346)
T ss_pred             eeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccc--cCCCHHHHHHHHHHHHHhcCCCeEE
Confidence            1112233689999999962        2344455566 778899999999974  223322   11111      23456


Q ss_pred             Hhccchhhh
Q psy1174         159 MLNGAAVMD  167 (182)
Q Consensus       159 ~~nk~d~~~  167 (182)
                      .+||+|+.+
T Consensus       286 V~nK~D~~~  294 (346)
T COG1084         286 VINKIDIAD  294 (346)
T ss_pred             EEecccccc
Confidence            799999774

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.00  E-value=4.1e-10  Score=97.16  Aligned_cols=86  Identities=19%  Similarity=0.174  Sum_probs=54.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|+++|.+|+|||||+++|++....   .......|.......+.+                               
T Consensus       157 ~~adVglVG~PNaGKSTLln~ls~a~~~---va~ypfTT~~p~~G~v~~-------------------------------  202 (335)
T PRK12299        157 LLADVGLVGLPNAGKSTLISAVSAAKPK---IADYPFTTLHPNLGVVRV-------------------------------  202 (335)
T ss_pred             ccCCEEEEcCCCCCHHHHHHHHHcCCCc---cCCCCCceeCceEEEEEe-------------------------------
Confidence            3456999999999999999999863210   000112222221110000                               


Q ss_pred             CCCcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           .+..++.++|+||..       .+.....+.+..+|++|+|||+.+.
T Consensus       203 -----~~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~  249 (335)
T PRK12299        203 -----DDYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAV  249 (335)
T ss_pred             -----CCCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCC
Confidence                 112579999999963       2445556677889999999999864

>PLN03118 Rab family protein; Provisional

Probab=98.99  E-value=1.6e-09  Score=86.76  Aligned_cols=86  Identities=13%  Similarity=0.132  Sum_probs=58.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|+.|+|||||+++|++....    +.............+.+                             . 
T Consensus        13 ~~~kv~ivG~~~vGKTsli~~l~~~~~~----~~~~t~~~~~~~~~~~~-----------------------------~-   58 (211)
T PLN03118         13 LSFKILLIGDSGVGKSSLLVSFISSSVE----DLAPTIGVDFKIKQLTV-----------------------------G-   58 (211)
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCCCC----CcCCCceeEEEEEEEEE-----------------------------C-
Confidence            3468999999999999999999853211    00011111110000000                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ....++.++||||+.+|.......+..+|++|+|+|+.+.
T Consensus        59 -----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~   98 (211)
T PLN03118         59 -----GKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRR   98 (211)
T ss_pred             -----CEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCH
Confidence                 0125789999999999988777888999999999999875

>cd01863 Rab18 Rab18 subfamily

Probab=98.99  E-value=1.7e-09  Score=81.93  Aligned_cols=37  Identities=8%  Similarity=0.081  Sum_probs=32.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.++||||+..|.......++.+|++++|+|+.+.
T Consensus        49 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~   85 (161)
T cd01863          49 VKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRR   85 (161)
T ss_pred             EEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCH
Confidence            5689999999999887777777899999999999875

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

>cd04125 RabA_like RabA-like subfamily

Probab=98.98  E-value=4.4e-10  Score=88.08  Aligned_cols=37  Identities=11%  Similarity=0.047  Sum_probs=33.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||..+|.......+..+|++|+|+|+.+.
T Consensus        49 ~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~   85 (188)
T cd04125          49 IKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQ   85 (188)
T ss_pred             EEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCH
Confidence            5688999999999988788888999999999999875

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.

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

Probab=98.97  E-value=8.4e-10  Score=84.42  Aligned_cols=37  Identities=22%  Similarity=0.253  Sum_probs=28.4

Q ss_pred             ceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.++||||+..       +.......+..+|++++|+|+...
T Consensus        44 ~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~   87 (176)
T cd01881          44 ARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASED   87 (176)
T ss_pred             CeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCC
Confidence            7799999999732       222345567789999999999865

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

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

Probab=98.97  E-value=2.7e-09  Score=80.24  Aligned_cols=37  Identities=11%  Similarity=0.074  Sum_probs=32.4

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+..|...+...+..+|++++|+|..+.
T Consensus        49 ~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~   85 (162)
T cd04138          49 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSR   85 (162)
T ss_pred             EEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCH
Confidence            5578899999999988777788899999999999864

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.

>PTZ00369 Ras-like protein; Provisional

Probab=98.97  E-value=1.7e-09  Score=85.18  Aligned_cols=86  Identities=14%  Similarity=0.043  Sum_probs=57.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|..|+|||||++++.+.....   +  ...|+...+. ..+ ..                        +   
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~---~--~~~t~~~~~~-~~~-~~------------------------~---   49 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFID---E--YDPTIEDSYR-KQC-VI------------------------D---   49 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCc---C--cCCchhhEEE-EEE-EE------------------------C---
Confidence            45689999999999999999998532110   0  0001100000 000 00                        0   


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           .....+.+.||||+.+|...+......+|++++|+|+.+.
T Consensus        50 -----~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~   89 (189)
T PTZ00369         50 -----EETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSR   89 (189)
T ss_pred             -----CEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCH
Confidence                 0115688999999999998877788999999999999875

>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=98.97  E-value=1.6e-10  Score=83.74  Aligned_cols=37  Identities=16%  Similarity=0.202  Sum_probs=30.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|++|...+.......+..+|++++|+|+.+.
T Consensus        50 ~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~   86 (119)
T PF08477_consen   50 QSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDP   86 (119)
T ss_dssp             EEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGH
T ss_pred             eEEEEEecCccceecccccchhhcCcEEEEEEcCCCh
Confidence            4588999999987776544458999999999999976

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.

>cd04122 Rab14 Rab14 subfamily

Probab=98.97  E-value=4e-09  Score=80.73  Aligned_cols=85  Identities=15%  Similarity=0.139  Sum_probs=56.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|+.++|||||+++|.+..-.   .+  ...|+...+....+ ..+                             
T Consensus         3 ~ki~iiG~~~vGKTsli~~~~~~~~~---~~--~~~t~~~~~~~~~~-~~~-----------------------------   47 (166)
T cd04122           3 FKYIIIGDMGVGKSCLLHQFTEKKFM---AD--CPHTIGVEFGTRII-EVN-----------------------------   47 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC---CC--CCcccceeEEEEEE-EEC-----------------------------
Confidence            57999999999999999999853211   00  00111111100000 000                             


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         ....++.+.||||+..|.......++.+|++|+|+|+.+.
T Consensus        48 ---~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~   87 (166)
T cd04122          48 ---GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRR   87 (166)
T ss_pred             ---CEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCH
Confidence               0125688999999999988777778999999999999975

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

>cd04158 ARD1 ARD1 subfamily

Probab=98.96  E-value=2.4e-09  Score=82.62  Aligned_cols=79  Identities=14%  Similarity=0.076  Sum_probs=54.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|..++|||||+++|.+....      ....|+...+..+                                    
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~------~~~~T~~~~~~~~------------------------------------   38 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM------QPIPTIGFNVETV------------------------------------   38 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC------CcCCcCceeEEEE------------------------------------
Confidence            4789999999999999999863211      0111111111000                                    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                       .....++.++||||+..|.......+..+|++++|+|+.+.
T Consensus        39 -~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~   79 (169)
T cd04158          39 -EYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHR   79 (169)
T ss_pred             -EECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcH
Confidence             01126799999999998887777778999999999999864

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

>cd04126 Rab20 Rab20 subfamily

Probab=98.96  E-value=1.4e-09  Score=88.58  Aligned_cols=60  Identities=17%  Similarity=0.134  Sum_probs=43.4

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-----------hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-----------HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-----------~~il~~~~~nk~d~~~  167 (182)
                      ..+.+.||||+..|..........+|++|+|+|+.+.    ++.+.+.           ..++...+.||+|+..
T Consensus        44 ~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~----~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~  114 (220)
T cd04126          44 YNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNV----QSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTE  114 (220)
T ss_pred             EEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCH----HHHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence            6789999999999988766778899999999999975    1211110           1133446689999754

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

>cd04136 Rap_like Rap-like subfamily

Probab=98.95  E-value=3.7e-09  Score=80.02  Aligned_cols=37  Identities=11%  Similarity=0.025  Sum_probs=31.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||.++|..........+|++++|+|..+.
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~   85 (163)
T cd04136          49 CMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQ   85 (163)
T ss_pred             EEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCH
Confidence            5678899999999987766677899999999999864

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.

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

Probab=98.95  E-value=5.7e-10  Score=85.74  Aligned_cols=37  Identities=14%  Similarity=0.087  Sum_probs=31.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||...|.......+..+|++|+|+|..+.
T Consensus        46 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~   82 (174)
T smart00174       46 VELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSP   82 (174)
T ss_pred             EEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCH
Confidence            5688999999998887666677899999999999865

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

>cd04140 ARHI_like ARHI subfamily

Probab=98.95  E-value=3.4e-09  Score=81.15  Aligned_cols=37  Identities=14%  Similarity=0.090  Sum_probs=32.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+.+|..........+|++|+|.|....
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~   85 (165)
T cd04140          49 CTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSK   85 (165)
T ss_pred             EEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCH
Confidence            6789999999999887666777899999999999876

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.95  E-value=3e-09  Score=81.95  Aligned_cols=64  Identities=8%  Similarity=0.097  Sum_probs=44.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccch--hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPG--HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~--~~il~~~~~nk~d~~~  167 (182)
                      .++.+.||||+.+|.......+..+|++|+|+|+.+..-....+    +++.  ..++...+.||+|+.+
T Consensus        44 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~  113 (164)
T cd04162          44 AIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPA  113 (164)
T ss_pred             eEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcC
Confidence            67999999999999887777889999999999998752011111    1111  1233446799999764

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.

>cd04116 Rab9 Rab9 subfamily

Probab=98.94  E-value=4.2e-09  Score=80.73  Aligned_cols=87  Identities=16%  Similarity=0.127  Sum_probs=56.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++++|||||+++|++....   .+...  ++...+....+ ..                          . 
T Consensus         4 ~~~ki~vvG~~~~GKTsli~~~~~~~~~---~~~~~--~~~~~~~~~~~-~~--------------------------~-   50 (170)
T cd04116           4 SLLKVILLGDGGVGKSSLMNRYVTNKFD---TQLFH--TIGVEFLNKDL-EV--------------------------D-   50 (170)
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHcCCCC---cCcCC--ceeeEEEEEEE-EE--------------------------C-
Confidence            3468999999999999999999853211   00001  11111100000 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           .....+.+.||||+..|.......+..+|++++|.|..+.
T Consensus        51 -----~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   90 (170)
T cd04116          51 -----GHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDS   90 (170)
T ss_pred             -----CeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCH
Confidence                 0115678899999999988777788999999999998864

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.94  E-value=1.1e-09  Score=82.25  Aligned_cols=20  Identities=25%  Similarity=0.419  Sum_probs=18.8

Q ss_pred             eEEECCCCCChHHHHhHHhc
Q psy1174          20 PGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~g   39 (182)
                      |+++|+.|+|||||++.|.+
T Consensus         2 i~l~G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhc
Confidence            78999999999999999984

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.

>PLN03110 Rab GTPase; Provisional

Probab=98.93  E-value=1e-09  Score=88.57  Aligned_cols=87  Identities=17%  Similarity=0.111  Sum_probs=58.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|+.++|||||+++|.+....   .+  ...|+...+....+ ..                          . 
T Consensus        11 ~~~Ki~ivG~~~vGKStLi~~l~~~~~~---~~--~~~t~g~~~~~~~v-~~--------------------------~-   57 (216)
T PLN03110         11 YLFKIVLIGDSGVGKSNILSRFTRNEFC---LE--SKSTIGVEFATRTL-QV--------------------------E-   57 (216)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCC---CC--CCCceeEEEEEEEE-EE--------------------------C-
Confidence            3468999999999999999999853211   01  11122221111111 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           .....+.+.||||..+|.......+..+|++|+|+|..+.
T Consensus        58 -----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~   97 (216)
T PLN03110         58 -----GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKR   97 (216)
T ss_pred             -----CEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCCh
Confidence                 0115788999999999988777778999999999999865

>cd04142 RRP22 RRP22 subfamily

Probab=98.93  E-value=1e-09  Score=87.72  Aligned_cols=63  Identities=11%  Similarity=0.091  Sum_probs=39.3

Q ss_pred             ceEEEeeCCChhHH--------HHHHHhccccCCeEEEEEEcCCCccccc-c----cccch------hhHHHHhHhccch
Q psy1174         104 RHVSFVDCPGHDIL--------MATMLNGAAVMDAALLLIGCDNAAKTPE-I----VDCPG------HDILMATMLNGAA  164 (182)
Q Consensus       104 ~~i~lIDtPGh~~f--------~~~~~~~~~~aD~ailVVda~~g~~~~q-t----~e~l~------~~il~~~~~nk~d  164 (182)
                      ..+.++||||...|        .......+..+|++|+|+|+.+.. .-+ .    .+.+.      ..++.+...||+|
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~-S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~D  127 (198)
T cd04142          49 YDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPD-SFHYVKLLRQQILETRPAGNKEPPIVVVGNKRD  127 (198)
T ss_pred             EEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHH-HHHHHHHHHHHHHHhcccCCCCCCEEEEEECcc
Confidence            56889999997543        222345578899999999998762 111 0    11111      1134456799999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +..
T Consensus       128 l~~  130 (198)
T cd04142         128 QQR  130 (198)
T ss_pred             ccc
Confidence            854

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=98.93  E-value=5.6e-09  Score=82.00  Aligned_cols=82  Identities=15%  Similarity=0.076  Sum_probs=56.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|+.++|||||+.++........      ..|+...+..+                                 
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~~~~~~~------~~T~~~~~~~~---------------------------------   56 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKLGEVVTT------IPTIGFNVETV---------------------------------   56 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCcccc------CCccccceEEE---------------------------------
Confidence            346799999999999999999963211100      00111111000                                 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ......+.++||||+..|..........+|++|+|+|+.+.
T Consensus        57 ----~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~   97 (182)
T PTZ00133         57 ----EYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDR   97 (182)
T ss_pred             ----EECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCH
Confidence                00126799999999999988777778999999999999863

>cd04132 Rho4_like Rho4-like subfamily

Probab=98.92  E-value=5.3e-09  Score=81.56  Aligned_cols=85  Identities=16%  Similarity=0.114  Sum_probs=55.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|..|+|||||+++|.+....   .+  ...|+...+.. .+ ..                          .   
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~---~~--~~~t~~~~~~~-~i-~~--------------------------~---   44 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFP---EE--YVPTVFENYVT-NI-QG--------------------------P---   44 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCC---CC--CCCeeeeeeEE-EE-Ee--------------------------c---
Confidence            36899999999999999999853211   00  11121111110 00 00                          0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        ......+.+.||||+.+|..........+|++|+|+|+.+.
T Consensus        45 --~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~   85 (187)
T cd04132          45 --NGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNP   85 (187)
T ss_pred             --CCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCH
Confidence              00115688999999999987766677899999999999875

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.92  E-value=4.8e-09  Score=82.25  Aligned_cols=63  Identities=11%  Similarity=0.163  Sum_probs=43.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccc----cccccch----hhHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTP----EIVDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~----qt~e~l~----~~il~~~~~nk~d~~  166 (182)
                      ..+.+.||||+.+|.......+..+|++++|+|+.+.....    +..++..    ..+....++||+|+.
T Consensus        52 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~  122 (183)
T cd04152          52 ITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLP  122 (183)
T ss_pred             eEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcc
Confidence            67999999999999876666678899999999998752111    1111111    113445669999975

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.

>cd00157 Rho Rho (Ras homology) family

Probab=98.92  E-value=3.2e-09  Score=80.97  Aligned_cols=64  Identities=9%  Similarity=0.024  Sum_probs=42.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccccccccchh------hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTPEIVDCPGH------DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~qt~e~l~~------~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+..|..........+|++++|+|+.+.. ......+.+..      .++.....||+|+.+
T Consensus        48 ~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  118 (171)
T cd00157          48 VNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRD  118 (171)
T ss_pred             EEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhh
Confidence            57899999999987665555568899999999998741 11111111111      133456689999765

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

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=98.91  E-value=1.1e-09  Score=85.61  Aligned_cols=112  Identities=13%  Similarity=0.140  Sum_probs=70.6

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL   92 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (182)
                      ..+...+|.++|..||||||+++.|.......        .....++. ..-+.                          
T Consensus        10 ~~~~~~~ililGl~~sGKTtll~~l~~~~~~~--------~~pT~g~~-~~~i~--------------------------   54 (175)
T PF00025_consen   10 SKKKEIKILILGLDGSGKTTLLNRLKNGEISE--------TIPTIGFN-IEEIK--------------------------   54 (175)
T ss_dssp             TTTSEEEEEEEESTTSSHHHHHHHHHSSSEEE--------EEEESSEE-EEEEE--------------------------
T ss_pred             ccCcEEEEEEECCCccchHHHHHHhhhccccc--------cCcccccc-cceee--------------------------
Confidence            34667889999999999999999997432110        11111110 00000                          


Q ss_pred             CCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch----h----hHHHHhHhccch
Q psy1174          93 RSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----H----DILMATMLNGAA  164 (182)
Q Consensus        93 ~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~----~il~~~~~nk~d  164 (182)
                              ..+..+.+.|.+|+..+....-.....+|++|+|||+.+.....+.++.|.    +    ..+...++||+|
T Consensus        55 --------~~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D  126 (175)
T PF00025_consen   55 --------YKGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQD  126 (175)
T ss_dssp             --------ETTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTT
T ss_pred             --------eCcEEEEEEeccccccccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEecccc
Confidence                    112789999999998887766667788999999999997522233333221    1    122336689998


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      ..+
T Consensus       127 ~~~  129 (175)
T PF00025_consen  127 LPD  129 (175)
T ss_dssp             STT
T ss_pred             ccC
Confidence            653

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 ....

>cd04175 Rap1 Rap1 subgroup

Probab=98.91  E-value=5.9e-09  Score=79.43  Aligned_cols=37  Identities=11%  Similarity=0.015  Sum_probs=32.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+..|..........+|++++|+|..+.
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~   85 (164)
T cd04175          49 CMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQ   85 (164)
T ss_pred             EEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCH
Confidence            5678999999999998877888999999999998764

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=98.91  E-value=8.6e-09  Score=78.28  Aligned_cols=64  Identities=13%  Similarity=0.061  Sum_probs=43.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----hh--hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----GH--DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~~--~il~~~~~nk~d~~~  167 (182)
                      ..+.+.||||+..|...+...+..+|++++|+|..+..-....+..+    .+  ..+.....||+|+.+
T Consensus        52 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  121 (164)
T cd04101          52 VELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLAD  121 (164)
T ss_pred             EEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccc
Confidence            67899999999998887777889999999999998652111001100    01  133445589999753

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.

>cd04177 RSR1 RSR1 subgroup

Probab=98.91  E-value=5.8e-09  Score=80.10  Aligned_cols=37  Identities=14%  Similarity=0.093  Sum_probs=32.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+.+|.......+..+|++++|+|..+.
T Consensus        49 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~   85 (168)
T cd04177          49 CDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSE   85 (168)
T ss_pred             EEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCH
Confidence            5688999999999988777778999999999999875

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

>cd01850 CDC_Septin CDC/Septin

Probab=98.91  E-value=1.6e-09  Score=91.02  Aligned_cols=25  Identities=20%  Similarity=0.250  Sum_probs=22.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..+|+++|++|+|||||+++|.+..
T Consensus         4 ~f~I~vvG~sg~GKSTliN~L~~~~   28 (276)
T cd01850           4 QFNIMVVGESGLGKSTFINTLFNTK   28 (276)
T ss_pred             EEEEEEEcCCCCCHHHHHHHHHcCC
Confidence            4689999999999999999998643

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.

>cd04144 Ras2 Ras2 subfamily

Probab=98.90  E-value=8.5e-09  Score=81.17  Aligned_cols=37  Identities=11%  Similarity=0.055  Sum_probs=32.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+.+|.......+..+|++|+|+|..+.
T Consensus        47 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~   83 (190)
T cd04144          47 CMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSR   83 (190)
T ss_pred             EEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCH
Confidence            4688999999999998777888999999999999875

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.89  E-value=2e-09  Score=97.42  Aligned_cols=90  Identities=24%  Similarity=0.356  Sum_probs=67.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      |+.-|+|+|++|+|||||+..|....+...-.+...-+|+..+.                                    
T Consensus        68 PPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTvvsgK------------------------------------  111 (1077)
T COG5192          68 PPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGK------------------------------------  111 (1077)
T ss_pred             CCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEEeecc------------------------------------
Confidence            44567899999999999999998533322223333444444432                                    


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH  152 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~  152 (182)
                             .++++|+.||   +-+..|+.-+..||.+||+||++-| +...|.|+|+-
T Consensus       112 -------~RRiTflEcp---~Dl~~miDvaKIaDLVlLlIdgnfG-fEMETmEFLni  157 (1077)
T COG5192         112 -------TRRITFLECP---SDLHQMIDVAKIADLVLLLIDGNFG-FEMETMEFLNI  157 (1077)
T ss_pred             -------eeEEEEEeCh---HHHHHHHhHHHhhheeEEEeccccC-ceehHHHHHHH
Confidence                   2899999999   3445688899999999999999999 99999997753

>cd01892 Miro2 Miro2 subfamily

Probab=98.89  E-value=8.2e-10  Score=85.54  Aligned_cols=116  Identities=16%  Similarity=0.103  Sum_probs=67.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|..|+|||||++++++....  ..+  .--|+...+..-.+ ..                          .
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~--~~~--~~~T~~~~~~~~~~-~~--------------------------~   50 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFS--LNA--YSPTIKPRYAVNTV-EV--------------------------Y   50 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCC--ccc--CCCccCcceEEEEE-EE--------------------------C
Confidence            45678999999999999999999853211  000  00111111100000 00                          0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-----hHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-----DILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-----~il~~~~~nk~d~~~  167 (182)
                      +      ....+.+.|++|...|..........+|++|+|+|+.+..-.....+.+..     .++....+||+|+.+
T Consensus        51 ~------~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~  122 (169)
T cd01892          51 G------QEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDE  122 (169)
T ss_pred             C------eEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEcccccc
Confidence            0      114577889999988866555556899999999999875110011111111     244567799999854

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.

>PRK09866 hypothetical protein; Provisional

Probab=98.89  E-value=2.1e-09  Score=99.00  Aligned_cols=64  Identities=16%  Similarity=0.173  Sum_probs=46.5

Q ss_pred             cceEEEeeCCChhH-----HHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH------HHHhHhccchhhh
Q psy1174         103 VRHVSFVDCPGHDI-----LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI------LMATMLNGAAVMD  167 (182)
Q Consensus       103 ~~~i~lIDtPGh~~-----f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i------l~~~~~nk~d~~~  167 (182)
                      ..++.||||||...     +...|..++..+|++++|||+..+ +....++++++..      ..+.++||+|..+
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~-~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~d  303 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQL-KSISDEEVREAILAVGQSVPLYVLVNKFDQQD  303 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCC-CChhHHHHHHHHHhcCCCCCEEEEEEcccCCC
Confidence            37899999999632     566677889999999999999986 5544444443321      3345689999764

>cd04176 Rap2 Rap2 subgroup

Probab=98.88  E-value=6.1e-09  Score=79.14  Aligned_cols=37  Identities=8%  Similarity=0.010  Sum_probs=32.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+.+|..........+|++++|+|..+.
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~   85 (163)
T cd04176          49 SVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQ   85 (163)
T ss_pred             EEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCH
Confidence            4688999999999988777777899999999999875

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

>cd04135 Tc10 TC10 subfamily

Probab=98.88  E-value=4.7e-09  Score=80.63  Aligned_cols=37  Identities=14%  Similarity=0.080  Sum_probs=31.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+.+|..........+|++++|+|..+.
T Consensus        48 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~   84 (174)
T cd04135          48 YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNP   84 (174)
T ss_pred             EEEEEEeCCCcccccccccccCCCCCEEEEEEECCCH
Confidence            5688999999999887666667899999999999875

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=98.87  E-value=8.2e-09  Score=81.96  Aligned_cols=85  Identities=15%  Similarity=0.132  Sum_probs=56.1

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|..++|||||+++|++....   ..  ...|+...+.... +...                         .    
T Consensus         2 KivivG~~~vGKTsli~~l~~~~~~---~~--~~~t~~~d~~~~~-v~~~-------------------------~----   46 (201)
T cd04107           2 KVLVIGDLGVGKTSIIKRYVHGIFS---QH--YKATIGVDFALKV-IEWD-------------------------P----   46 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCC---CC--CCCceeEEEEEEE-EEEC-------------------------C----
Confidence            6899999999999999999853211   00  1112221111000 0000                         0    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        .....+.+.||||+..|.......+..+|++|+|+|..+.
T Consensus        47 --~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~   86 (201)
T cd04107          47 --NTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRP   86 (201)
T ss_pred             --CCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCH
Confidence              0115689999999999987777777999999999999864

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=98.87  E-value=9.1e-09  Score=79.82  Aligned_cols=84  Identities=10%  Similarity=0.120  Sum_probs=56.6

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|..++|||||++++++..-.   .+  ..-|+...+....+ ..                          .    
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~---~~--~~~t~~~~~~~~~~-~~--------------------------~----   45 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFD---KN--YKATIGVDFEMERF-EI--------------------------L----   45 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC---CC--CCCceeeEEEEEEE-EE--------------------------C----
Confidence            4889999999999999999853211   11  11122222210000 00                          0    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        ....++.+.||||..+|.......++.+|++++|+|+.+.
T Consensus        46 --~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~   85 (170)
T cd04108          46 --GVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDV   85 (170)
T ss_pred             --CEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCH
Confidence              0126799999999999988777778999999999999864

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.86  E-value=2.8e-09  Score=96.18  Aligned_cols=83  Identities=17%  Similarity=0.169  Sum_probs=52.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ...|+++|.+|+|||||+++|++....   .....+.|.......+.                                 
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~akpk---IadypfTTl~P~lGvv~---------------------------------  202 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAKPK---IADYPFTTLVPNLGVVQ---------------------------------  202 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCCcc---ccccCcccccceEEEEE---------------------------------
Confidence            356999999999999999999864210   01111222221110000                                 


Q ss_pred             CCcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                          ....+|.++||||..       .+....++.+..+|++|+|||+..
T Consensus       203 ----~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~  248 (500)
T PRK12296        203 ----AGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCAT  248 (500)
T ss_pred             ----ECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcc
Confidence                112679999999952       123344556788999999999974

>KOG1191|consensus

Probab=98.84  E-value=3.8e-09  Score=94.01  Aligned_cols=87  Identities=17%  Similarity=0.142  Sum_probs=56.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +..+.|+|+|++|+|||||+|+|+.....  -...+.|.|.+.--+.+.                             -+
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~drs--IVSpv~GTTRDaiea~v~-----------------------------~~  314 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSREDRS--IVSPVPGTTRDAIEAQVT-----------------------------VN  314 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcCCce--EeCCCCCcchhhheeEee-----------------------------cC
Confidence            34578999999999999999999853210  011123333332221111                             13


Q ss_pred             CCCCcccccceEEEeeCCChhH--------H-HHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDI--------L-MATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~--------f-~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      |        .++.++||.|-..        . .......+..||++++||||.++
T Consensus       315 G--------~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~  361 (531)
T KOG1191|consen  315 G--------VPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEES  361 (531)
T ss_pred             C--------eEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEeccccc
Confidence            3        8999999999754        1 11234556899999999999876

>cd04127 Rab27A Rab27a subfamily

Probab=98.84  E-value=1.5e-08  Score=78.26  Aligned_cols=37  Identities=16%  Similarity=0.121  Sum_probs=33.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+..|.......+..+|++++|+|+.+.
T Consensus        63 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   99 (180)
T cd04127          63 IHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNE   99 (180)
T ss_pred             EEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCH
Confidence            6789999999999988777788999999999999865

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

>PLN03108 Rab family protein; Provisional

Probab=98.83  E-value=1.3e-08  Score=81.84  Aligned_cols=115  Identities=12%  Similarity=0.090  Sum_probs=68.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|+.++|||||+++|.+.....   .  ...|+...+....+ ..                          .
T Consensus         4 ~~~~kivivG~~gvGKStLi~~l~~~~~~~---~--~~~ti~~~~~~~~i-~~--------------------------~   51 (210)
T PLN03108          4 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQP---V--HDLTIGVEFGARMI-TI--------------------------D   51 (210)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCC---C--CCCCccceEEEEEE-EE--------------------------C
Confidence            345789999999999999999998532110   0  00011111100000 00                          0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----h---hhHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----G---HDILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~---~~il~~~~~nk~d~~~  167 (182)
                            .....+.+.||||+..|.......+..+|++|+|+|+....-.....+.+    .   ..+....+.||+|+..
T Consensus        52 ------~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~  125 (210)
T PLN03108         52 ------NKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAH  125 (210)
T ss_pred             ------CEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcc
Confidence                  01146889999999999887777778999999999998752111111111    0   1133446689999754

>cd04109 Rab28 Rab28 subfamily

Probab=98.83  E-value=1.6e-08  Score=81.41  Aligned_cols=85  Identities=16%  Similarity=0.131  Sum_probs=55.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|..|+|||||+++|.+....   .+  ...|+...+....+ .+                          .+   
T Consensus         2 Ki~ivG~~~vGKSsLi~~l~~~~~~---~~--~~~T~~~d~~~~~i-~~--------------------------~~---   46 (215)
T cd04109           2 KIVVLGDGAVGKTSLCRRFAKEGFG---KS--YKQTIGLDFFSKRV-TL--------------------------PG---   46 (215)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCC---CC--CCCceeEEEEEEEE-Ee--------------------------CC---
Confidence            5899999999999999999853211   11  11122221110000 00                          00   


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        .....+.+.||||+..|......-+..+|++|+|+|+.+.
T Consensus        47 --~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~   86 (215)
T cd04109          47 --NLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNS   86 (215)
T ss_pred             --CCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCH
Confidence              0126789999999988887766777999999999999864

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

>cd04118 Rab24 Rab24 subfamily

Probab=98.81  E-value=1.3e-08  Score=79.82  Aligned_cols=64  Identities=8%  Similarity=-0.059  Sum_probs=41.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh------hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH------DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~------~il~~~~~nk~d~~~  167 (182)
                      ..+.+.||||..+|..........+|++++|+|+.+..-....+..+..      ......+.||+|+..
T Consensus        50 ~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  119 (193)
T cd04118          50 VTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIE  119 (193)
T ss_pred             EEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccc
Confidence            5678999999988877666667789999999999865101001111110      123446699999753

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

>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=98.80  E-value=1.7e-08  Score=82.82  Aligned_cols=82  Identities=15%  Similarity=0.126  Sum_probs=52.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++|++|+|||||+++|.+....   .....+.|.......                             ..+.    
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~---v~~~~~tT~~~~~g~-----------------------------~~~~----   45 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSE---VAAYEFTTLTCVPGV-----------------------------LEYK----   45 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCcc---ccCCCCccccceEEE-----------------------------EEEC----
Confidence            4899999999999999999974321   000011111110000                             0011    


Q ss_pred             cccccceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ..++.++||||..+       +...+...++.+|++++|+|+.+.
T Consensus        46 ----~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~   90 (233)
T cd01896          46 ----GAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLDATKP   90 (233)
T ss_pred             ----CeEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEEecCCcc
Confidence                26799999999742       334566778999999999998754

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=98.79  E-value=2.1e-08  Score=77.00  Aligned_cols=37  Identities=14%  Similarity=0.097  Sum_probs=30.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+.+|.......+..+|++++|.|....
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~   85 (175)
T cd01870          49 VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP   85 (175)
T ss_pred             EEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCH
Confidence            5688999999998887655677899999999998853

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.79  E-value=3.2e-09  Score=97.88  Aligned_cols=104  Identities=18%  Similarity=0.157  Sum_probs=62.6

Q ss_pred             CCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCccccc
Q psy1174          24 GHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLV  103 (182)
Q Consensus        24 G~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (182)
                      |.+|+|||||+|+|.+...   +.....|.|++.....+..                             .        +
T Consensus         1 G~pNvGKSSL~N~Ltg~~~---~v~n~pG~Tv~~~~~~i~~-----------------------------~--------~   40 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQ---TVGNWPGVTVEKKEGKLGF-----------------------------Q--------G   40 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCC---eecCCCCeEEEEEEEEEEE-----------------------------C--------C
Confidence            8999999999999997532   1222356665543321111                             1        1


Q ss_pred             ceEEEeeCCChhHHHHH-----HHh---ccccCCeEEEEEEcCCCccc-ccccccchhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMAT-----MLN---GAAVMDAALLLIGCDNAAKT-PEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~-----~~~---~~~~aD~ailVVda~~g~~~-~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                      ++++++||||+.+|...     +.+   ....+|++++|+|+...... ..+.+..+........+||+|+..
T Consensus        41 ~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler~l~l~~ql~~~~~PiIIVlNK~Dl~~  113 (591)
T TIGR00437        41 EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLERNLYLTLQLLELGIPMILALNLVDEAE  113 (591)
T ss_pred             eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchhhHHHHHHHHhcCCCEEEEEehhHHHH
Confidence            56899999998776431     111   23478999999999864111 001111112344556799999764

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.

>cd04111 Rab39 Rab39 subfamily

Probab=98.78  E-value=2.7e-08  Score=80.11  Aligned_cols=86  Identities=15%  Similarity=0.147  Sum_probs=56.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|..++|||||+++|++.....   .  ...|+...+....+ ...                         .   
T Consensus         3 ~KIvvvG~~~vGKTsLi~~l~~~~~~~---~--~~~ti~~d~~~~~i-~~~-------------------------~---   48 (211)
T cd04111           3 FRLIVIGDSTVGKSSLLKRFTEGRFAE---V--SDPTVGVDFFSRLI-EIE-------------------------P---   48 (211)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCC---C--CCceeceEEEEEEE-EEC-------------------------C---
Confidence            579999999999999999998532110   0  01122111110000 000                         0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....+.+.||||+..|.......+..+|++++|+|..+.
T Consensus        49 ---~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~   88 (211)
T cd04111          49 ---GVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNR   88 (211)
T ss_pred             ---CCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCH
Confidence               0115789999999999987766777899999999999875

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=98.78  E-value=4.1e-08  Score=76.24  Aligned_cols=64  Identities=11%  Similarity=0.066  Sum_probs=44.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc---cch-----hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD---CPG-----HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e---~l~-----~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||..+|.......+..+|++++|+|..+..-.....+   .+.     ..++.+.+.||+|+.+
T Consensus        50 ~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~  121 (172)
T cd04141          50 ALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLES  121 (172)
T ss_pred             EEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhh
Confidence            568899999999998877778899999999999987521111110   011     1234456799999754

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=98.77  E-value=3.7e-08  Score=76.76  Aligned_cols=37  Identities=11%  Similarity=0.025  Sum_probs=32.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.+.||||..+|.......+..+|++|+|+|..+.
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~   85 (174)
T cd01871          49 VNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP   85 (174)
T ss_pred             EEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCH
Confidence            5788999999999987666677899999999999874

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=98.76  E-value=3.1e-08  Score=77.20  Aligned_cols=64  Identities=8%  Similarity=-0.003  Sum_probs=43.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc-c---c-h--hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD-C---P-G--HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e-~---l-~--~~il~~~~~nk~d~~~  167 (182)
                      .++.+.||||+++|..........+|++|+|+|..+..-.....+ .   + .  ..++.....||+|+.+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~  119 (175)
T cd01874          49 YTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRD  119 (175)
T ss_pred             EEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhh
Confidence            678899999999998766667789999999999987520000111 0   1 0  1133446699999764

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

>cd01900 YchF YchF subfamily

Probab=98.76  E-value=2.3e-08  Score=84.11  Aligned_cols=97  Identities=19%  Similarity=0.159  Sum_probs=54.0

Q ss_pred             eEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCc
Q psy1174          20 PGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGR   99 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (182)
                      |+++|.+|+|||||+++|++....   .....+.|++.....+.+..    .+...             +..-+..   .
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~---~~n~pftTi~p~~g~v~v~d----~r~~~-------------l~~~~~~---~   57 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAE---AANYPFCTIEPNVGIVPVPD----ERLDK-------------LAEIVKP---K   57 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCc---cccccccchhceeeeEEecc----chhhh-------------HHHHhCC---c
Confidence            589999999999999999975321   11112333333222111100    00000             0000000   0


Q ss_pred             ccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCC
Q psy1174         100 FQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       100 ~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      ..-..++.++|+||..       .+.......++.+|+++.|||+.+
T Consensus        58 k~~~~~i~lvD~pGl~~~a~~~~glg~~fL~~i~~~D~li~VV~~f~  104 (274)
T cd01900          58 KIVPATIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCFE  104 (274)
T ss_pred             eeeeeEEEEEECCCcCCCCchhhHHHHHHHHHHHhCCEEEEEEeCcC
Confidence            0111469999999942       344456667799999999999964

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.

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

Probab=98.75  E-value=1.7e-08  Score=75.43  Aligned_cols=101  Identities=19%  Similarity=0.278  Sum_probs=67.5

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +++++|++++|||||+++|-|...-       ..-|....|.                                      
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~l-------ykKTQAve~~--------------------------------------   37 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTL-------YKKTQAVEFN--------------------------------------   37 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhh-------hcccceeecc--------------------------------------
Confidence            5899999999999999999874321       1123333220                                      


Q ss_pred             cccccceEEEeeCCC----hhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccchhh-hHH
Q psy1174          99 RFQLVRHVSFVDCPG----HDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAAVM-DAA  169 (182)
Q Consensus        99 ~~~~~~~i~lIDtPG----h~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d~~-~~~  169 (182)
                            .=..|||||    |..+.+.++..++.+|+.++|-+++++.    ++...+.    .-....++.|+|+. |++
T Consensus        38 ------d~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~----s~f~p~f~~~~~k~vIgvVTK~DLaed~d  107 (148)
T COG4917          38 ------DKGDIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPE----SRFPPGFLDIGVKKVIGVVTKADLAEDAD  107 (148)
T ss_pred             ------CccccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCcc----ccCCcccccccccceEEEEecccccchHh
Confidence                  113589999    5677778888899999999999999872    1111111    01133458999987 666


Q ss_pred             HHhhh
Q psy1174         170 LLLIG  174 (182)
Q Consensus       170 ~~~~~  174 (182)
                      +-+..
T Consensus       108 I~~~~  112 (148)
T COG4917         108 ISLVK  112 (148)
T ss_pred             HHHHH
Confidence            55544

>PTZ00258 GTP-binding protein; Provisional

Probab=98.75  E-value=3.3e-08  Score=86.88  Aligned_cols=101  Identities=17%  Similarity=0.047  Sum_probs=55.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|+++|.+|+|||||+++|++....   .....+.|+......+.+.+.  .......++.                
T Consensus        20 ~~~kvgIVG~PNvGKSTLfnaLt~~~~~---v~n~pftTi~p~~g~v~~~d~--r~~~l~~~~~----------------   78 (390)
T PTZ00258         20 NNLKMGIVGLPNVGKSTTFNALCKQQVP---AENFPFCTIDPNTARVNVPDE--RFDWLCKHFK----------------   78 (390)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcCccc---ccCCCCCcccceEEEEecccc--hhhHHHHHcC----------------
Confidence            3456999999999999999999864321   111122232222211111000  0000000000                


Q ss_pred             CCCcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                        ....-..++.++||||..       .+.......++.+|++++|||+.+
T Consensus        79 --~~~~~~aqi~lvDtpGLv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f~  127 (390)
T PTZ00258         79 --PKSIVPAQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAFE  127 (390)
T ss_pred             --CcccCCCCeEEEECCCcCcCCcchhHHHHHHHHHHHHCCEEEEEEeCCC
Confidence              000111569999999952       244456677899999999999964

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.74  E-value=6.7e-09  Score=82.71  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+|+++|++|+|||||+++|+|.
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~   24 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGV   24 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcc
Confidence            56999999999999999999974

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

>COG2262 HflX GTPases [General function prediction only]

Probab=98.74  E-value=6.5e-09  Score=90.86  Aligned_cols=113  Identities=16%  Similarity=0.189  Sum_probs=67.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...+.|+++|..|+|||||+|+|++...-   .+.+-=-|.+...-.+.+                              
T Consensus       190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~---~~d~LFATLdpttR~~~l------------------------------  236 (411)
T COG2262         190 SGIPLVALVGYTNAGKSTLFNALTGADVY---VADQLFATLDPTTRRIEL------------------------------  236 (411)
T ss_pred             cCCCeEEEEeeccccHHHHHHHHhccCee---ccccccccccCceeEEEe------------------------------
Confidence            35677999999999999999999864310   000000011110000000                              


Q ss_pred             CCCCcccccceEEEeeCCCh---------hHHHHHHHhccccCCeEEEEEEcCCCcccccccc---cch----hhHHHHh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGH---------DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD---CPG----HDILMAT  158 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh---------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e---~l~----~~il~~~  158 (182)
                            ..++++.+-||-|+         +.|.. ++.....||..+.|||+.++....+...   .|.    ..++...
T Consensus       237 ------~~g~~vlLtDTVGFI~~LP~~LV~AFks-TLEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~  309 (411)
T COG2262         237 ------GDGRKVLLTDTVGFIRDLPHPLVEAFKS-TLEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIIL  309 (411)
T ss_pred             ------CCCceEEEecCccCcccCChHHHHHHHH-HHHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEE
Confidence                  11278999999997         23443 5667789999999999998733322221   110    1134556


Q ss_pred             Hhccchhhh
Q psy1174         159 MLNGAAVMD  167 (182)
Q Consensus       159 ~~nk~d~~~  167 (182)
                      .+||+|...
T Consensus       310 v~NKiD~~~  318 (411)
T COG2262         310 VLNKIDLLE  318 (411)
T ss_pred             EEecccccC
Confidence            799999653

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=98.73  E-value=4.2e-08  Score=79.46  Aligned_cols=115  Identities=13%  Similarity=-0.022  Sum_probs=68.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|..|+|||||+.+++....   ..+  ...|+...+....+ ..                        .  
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f---~~~--~~~tig~~~~~~~~-~~------------------------~--   58 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEF---EKK--YEPTIGVEVHPLDF-FT------------------------N--   58 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCC---CCc--cCCccceeEEEEEE-EE------------------------C--
Confidence            5567899999999999999999873211   001  11122111110000 00                        0  


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc------hhhHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP------GHDILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l------~~~il~~~~~nk~d~~~  167 (182)
                            .....+.+.||||..+|..........+|++|+|+|..+..-.....+.+      ...+..+.+.||+|+..
T Consensus        59 ------~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~  131 (219)
T PLN03071         59 ------CGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKN  131 (219)
T ss_pred             ------CeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhh
Confidence                  01257899999999999876555678999999999999752000001100      01234456689999753

>cd04120 Rab12 Rab12 subfamily

Probab=98.73  E-value=4.4e-08  Score=78.70  Aligned_cols=84  Identities=8%  Similarity=0.076  Sum_probs=56.6

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|..++|||||+.++....-   ..+  ...|+...+....+ ..                          .    
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~f---~~~--~~~Ti~~~~~~~~i-~~--------------------------~----   45 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDTF---CEA--CKSGVGVDFKIKTV-EL--------------------------R----   45 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCC---CCc--CCCcceeEEEEEEE-EE--------------------------C----
Confidence            478999999999999999984221   111  11222222210000 00                          0    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        .....+.+.||||+++|........+.+|++|+|+|.++.
T Consensus        46 --~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~   85 (202)
T cd04120          46 --GKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKK   85 (202)
T ss_pred             --CEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCH
Confidence              0126789999999999998777778999999999999975

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.72  E-value=1.5e-08  Score=87.23  Aligned_cols=86  Identities=21%  Similarity=0.145  Sum_probs=53.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..-.|+++|.+|+|||||+++|++....   .......|.......+.                                
T Consensus       156 ~~adV~lvG~pnaGKSTLl~~lt~~~~~---va~y~fTT~~p~ig~v~--------------------------------  200 (329)
T TIGR02729       156 LLADVGLVGLPNAGKSTLISAVSAAKPK---IADYPFTTLVPNLGVVR--------------------------------  200 (329)
T ss_pred             ccccEEEEcCCCCCHHHHHHHHhcCCcc---ccCCCCCccCCEEEEEE--------------------------------
Confidence            3457999999999999999999863210   00000111111000000                                


Q ss_pred             CCCcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....++.++||||..       .+.....+.+..+|++++|+|+...
T Consensus       201 ----~~~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~  248 (329)
T TIGR02729       201 ----VDDGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPL  248 (329)
T ss_pred             ----eCCceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccc
Confidence                0012679999999973       2444456667789999999999853

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=98.72  E-value=3.8e-08  Score=75.97  Aligned_cols=64  Identities=13%  Similarity=-0.035  Sum_probs=43.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccccccccch------hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTPEIVDCPG------HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~qt~e~l~------~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+..|.......+..+|++|+|+|..+.. .+......+.      ..++.....||+|+..
T Consensus        48 ~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  118 (173)
T cd04130          48 VRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRT  118 (173)
T ss_pred             EEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhcc
Confidence            57889999999998876666778999999999998752 1111111110      0133456799999764

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,

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

Probab=98.70  E-value=5.4e-08  Score=80.81  Aligned_cols=26  Identities=27%  Similarity=0.358  Sum_probs=23.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ....+|+++|++|+|||||+|+|+|.
T Consensus        29 ~~~~~IllvG~tGvGKSSliNaLlg~   54 (249)
T cd01853          29 DFSLTILVLGKTGVGKSSTINSIFGE   54 (249)
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhCC
Confidence            35578999999999999999999975

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.

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=98.69  E-value=1.5e-08  Score=77.61  Aligned_cols=37  Identities=16%  Similarity=0.335  Sum_probs=28.5

Q ss_pred             ceEEEeeCCChhHH----HHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDIL----MATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f----~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.||||||..+.    ...+...+..+|++|+|+++...
T Consensus       101 ~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~  141 (168)
T PF00350_consen  101 RNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQD  141 (168)
T ss_dssp             CSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTST
T ss_pred             cceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcc
Confidence            56999999998531    12345556899999999999986

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 ....

>cd01875 RhoG RhoG subfamily

Probab=98.69  E-value=9.6e-08  Score=75.46  Aligned_cols=112  Identities=10%  Similarity=0.039  Sum_probs=67.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|..++|||||+.++....-   ..+  ...|+...+.. .+ ..+                            
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f---~~~--~~~t~~~~~~~-~~-~~~----------------------------   47 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAF---PKE--YIPTVFDNYSA-QT-AVD----------------------------   47 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCC---CcC--CCCceEeeeEE-EE-EEC----------------------------
Confidence            46799999999999999999984221   011  11122111110 00 000                            


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc-c---ch---hhHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD-C---PG---HDILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e-~---l~---~~il~~~~~nk~d~~~  167 (182)
                          .....+.+.||||++.|....-...+.+|++|+|.|..+..-.....+ .   +.   ..++.+.+.||.|+.+
T Consensus        48 ----~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~  121 (191)
T cd01875          48 ----GRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRN  121 (191)
T ss_pred             ----CEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhc
Confidence                012568899999999998766666789999999999987520000000 0   00   1133456699999864

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

>cd04121 Rab40 Rab40 subfamily

Probab=98.68  E-value=8.9e-08  Score=76.11  Aligned_cols=114  Identities=12%  Similarity=0.058  Sum_probs=68.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|..++|||||+.++.....   ..+....+........+.+   +                           
T Consensus         5 ~~~KivviG~~~vGKTsll~~~~~~~~---~~~~~~t~~~~~~~~~i~~---~---------------------------   51 (189)
T cd04121           5 YLLKFLLVGDSDVGKGEILASLQDGST---ESPYGYNMGIDYKTTTILL---D---------------------------   51 (189)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCC---CCCCCCcceeEEEEEEEEE---C---------------------------
Confidence            347899999999999999999984211   1110011111111100000   0                           


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchh--hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH--DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~--~il~~~~~nk~d~~~  167 (182)
                           .....+.+.||||+.+|..........+|++|||+|..+..    +.....+...+  .+....+.||.|+..
T Consensus        52 -----~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~  124 (189)
T cd04121          52 -----GRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAF  124 (189)
T ss_pred             -----CEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccchh
Confidence                 11267899999999999986666678999999999998752    11110111111  133345689999764

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

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.68  E-value=7.8e-08  Score=83.82  Aligned_cols=99  Identities=19%  Similarity=0.172  Sum_probs=55.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|.+|+|||||+++|++....   .....+.|++.....+.+..                 .+-+.+.   .-++
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~---v~nypftTi~p~~G~~~v~d-----------------~r~~~l~---~~~~   59 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAE---AANYPFCTIEPNVGVVPVPD-----------------PRLDKLA---EIVK   59 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCe---ecccccccccceEEEEEecc-----------------ccchhhH---HhcC
Confidence            56999999999999999999975321   11112333332221111100                 0000000   0000


Q ss_pred             CcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCC
Q psy1174          98 GRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      ....-..++.++|+||..       .+....+..++.+|+++.|||+.+
T Consensus        60 p~~~~~a~i~lvD~pGL~~~a~~g~glg~~fL~~i~~aD~li~VVd~f~  108 (364)
T PRK09601         60 PKKIVPATIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVVRCFE  108 (364)
T ss_pred             CccccCceEEEEECCCCCCCCChHHHHHHHHHHHHHhCCEEEEEEeCCc
Confidence            001111479999999942       244456677899999999999964

>cd04117 Rab15 Rab15 subfamily

Probab=98.68  E-value=9.1e-08  Score=73.21  Aligned_cols=37  Identities=8%  Similarity=0.079  Sum_probs=32.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||..+|..........+|++++|+|..+.
T Consensus        49 ~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   85 (161)
T cd04117          49 VRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSE   85 (161)
T ss_pred             EEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCH
Confidence            5688999999999888777778999999999998864

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=98.67  E-value=9.3e-08  Score=79.13  Aligned_cols=37  Identities=19%  Similarity=0.209  Sum_probs=31.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+.+|.......+..+|++|+|+|..+.
T Consensus        48 ~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~   84 (247)
T cd04143          48 YQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNR   84 (247)
T ss_pred             EEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCH
Confidence            6789999999999887666667889999999999864

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=98.66  E-value=1.3e-07  Score=75.72  Aligned_cols=90  Identities=13%  Similarity=-0.016  Sum_probs=57.7

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHh-cCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAIS-GVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFP   90 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~-g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (182)
                      +.+....+|+++|+.|+|||||++.++ +.....      ...|+...+....+ ..                       
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~------~~~t~~~~~~~~~~-~~-----------------------   53 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKK------YIPTLGVEVHPLKF-YT-----------------------   53 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCC------CCCccceEEEEEEE-EE-----------------------
Confidence            445566789999999999999997654 432211      11122221111000 00                       


Q ss_pred             ccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          91 CLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        91 ~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                               ......+.+.||||+.+|..........+|++++|+|..+.
T Consensus        54 ---------~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   94 (215)
T PTZ00132         54 ---------NCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSR   94 (215)
T ss_pred             ---------CCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCH
Confidence                     01126789999999998876655556789999999999875

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=98.66  E-value=9.6e-08  Score=77.10  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=21.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ++|.++|..|+||||++|.|+|..
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~   24 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKE   24 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            479999999999999999999854

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 ....

>cd04134 Rho3 Rho3 subfamily

Probab=98.65  E-value=8.9e-08  Score=75.38  Aligned_cols=64  Identities=13%  Similarity=0.105  Sum_probs=41.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-cccc----ccccchh--hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTPE----IVDCPGH--DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~q----t~e~l~~--~il~~~~~nk~d~~~  167 (182)
                      ..+.+.||||...|..........+|++++|.|..+.. +...    ..+...+  .++.+.+.||+|+.+
T Consensus        48 ~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~  118 (189)
T cd04134          48 IELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLRE  118 (189)
T ss_pred             EEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcc
Confidence            57899999999988765555668899999999988641 1100    0010000  133446689999864

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=98.61  E-value=2.3e-07  Score=73.24  Aligned_cols=86  Identities=13%  Similarity=0.067  Sum_probs=57.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|+++|..++|||||+.++....-   ..+  ...|+...+.. .+ ..                            
T Consensus         4 ~~~KivvvGd~~vGKTsli~~~~~~~f---~~~--~~pT~~~~~~~-~~-~~----------------------------   48 (182)
T cd04172           4 VKCKIVVVGDSQCGKTALLHVFAKDCF---PEN--YVPTVFENYTA-SF-EI----------------------------   48 (182)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCC---CCc--cCCceeeeeEE-EE-EE----------------------------
Confidence            446799999999999999999984321   111  11122111110 00 00                            


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ......+.+.||+|.+.|........+.+|++|||.|..+.
T Consensus        49 ----~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~   89 (182)
T cd04172          49 ----DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP   89 (182)
T ss_pred             ----CCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCH
Confidence                01125689999999999987666777899999999999875

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

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.61  E-value=6.4e-08  Score=81.02  Aligned_cols=100  Identities=14%  Similarity=0.033  Sum_probs=64.6

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ++++.||.+.|.+|+|||||+|+|.+....          .++...+           |.+|.-          .+... 
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~----------~v~~vg~-----------~t~~~~----------~~~~~-   83 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVK----------EVSKVGV-----------GTDITT----------RLRLS-   83 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCc----------eeeeccc-----------CCCchh----------hHHhh-
Confidence            567889999999999999999999842210          1110000           000000          00011 


Q ss_pred             CCCCCcccccceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCCCcccccccccchhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD  153 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~  153 (182)
                             ...+.+++.||||..+       +......-+...|.+++++++.+. -.....+++++.
T Consensus        84 -------~~~~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~dr-aL~~d~~f~~dV  142 (296)
T COG3596          84 -------YDGENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDR-ALGTDEDFLRDV  142 (296)
T ss_pred             -------ccccceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCc-cccCCHHHHHHH
Confidence                   1226799999999865       777777888999999999999986 444445555554

>cd04131 Rnd Rnd subfamily

Probab=98.60  E-value=1.8e-07  Score=73.43  Aligned_cols=84  Identities=15%  Similarity=0.108  Sum_probs=55.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|..++|||||+.++.+..-   ..+  ...|+...+.. .+ ..+                             
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f---~~~--~~~t~~~~~~~-~~-~~~-----------------------------   45 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCY---PET--YVPTVFENYTA-SF-EID-----------------------------   45 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcC---CCC--cCCceEEEEEE-EE-EEC-----------------------------
Confidence            3689999999999999999985321   111  11122111110 00 000                             


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....+.+.||||++.|........+.+|++|+|.|..+.
T Consensus        46 ---~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~   85 (178)
T cd04131          46 ---EQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRP   85 (178)
T ss_pred             ---CEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCCh
Confidence               1125688999999999987666667899999999999875

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.

>cd04128 Spg1 Spg1p

Probab=98.60  E-value=1.8e-07  Score=73.61  Aligned_cols=37  Identities=14%  Similarity=0.055  Sum_probs=32.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||+|+..|..........+|++++|+|+.+.
T Consensus        49 ~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~   85 (182)
T cd04128          49 ITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRK   85 (182)
T ss_pred             EEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCH
Confidence            5789999999999988777778999999999999875

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=98.60  E-value=5.3e-08  Score=78.37  Aligned_cols=37  Identities=16%  Similarity=0.106  Sum_probs=32.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||+|.+.|..........+|++|+|.|..+.
T Consensus        54 ~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~   90 (202)
T cd04102          54 FFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNR   90 (202)
T ss_pred             EEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcCh
Confidence            5789999999999987766777899999999999875

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.

>KOG0073|consensus

Probab=98.59  E-value=4.3e-08  Score=76.24  Aligned_cols=107  Identities=17%  Similarity=0.159  Sum_probs=74.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|-++|.-||||||++..|.+...+        .+....+|.-.++                                
T Consensus        16 E~riLiLGLdNsGKTti~~kl~~~~~~--------~i~pt~gf~Iktl--------------------------------   55 (185)
T KOG0073|consen   16 EVRILILGLDNSGKTTIVKKLLGEDTD--------TISPTLGFQIKTL--------------------------------   55 (185)
T ss_pred             eeEEEEEecCCCCchhHHHHhcCCCcc--------ccCCccceeeEEE--------------------------------
Confidence            578999999999999999999985432        1111222211000                                


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH--------HHhHhccchhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL--------MATMLNGAAVM  166 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il--------~~~~~nk~d~~  166 (182)
                         ....+++++-|..|...+..-.-.....+|+.|+|||+.+-.+..++...|.+++.        +..+.||+|+.
T Consensus        56 ---~~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~  130 (185)
T KOG0073|consen   56 ---EYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLP  130 (185)
T ss_pred             ---EecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCc
Confidence               11228899999999998888888888999999999999876444455554444322        22568999877

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.58  E-value=1.7e-07  Score=83.38  Aligned_cols=83  Identities=18%  Similarity=0.133  Sum_probs=52.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|.+|+|||||+++|++....   .......|....+..+.+                                 
T Consensus       159 adVglVG~pNaGKSTLLn~Lt~ak~k---Ia~ypfTTl~PnlG~v~~---------------------------------  202 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLSVVSNAKPK---IANYHFTTLVPNLGVVET---------------------------------  202 (424)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHcCCCc---cccCCcceeceEEEEEEE---------------------------------
Confidence            36999999999999999999863210   000112222221110000                                 


Q ss_pred             CcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCC
Q psy1174          98 GRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                         .....+.++|+||..       .+.....+.+..+|++|+|||+..
T Consensus       203 ---~~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~  248 (424)
T PRK12297        203 ---DDGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSG  248 (424)
T ss_pred             ---eCCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCc
Confidence               012679999999963       233445566778999999999964

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=98.57  E-value=3.4e-07  Score=74.71  Aligned_cols=37  Identities=14%  Similarity=0.075  Sum_probs=32.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||+|.+.|....-.....+|++|+|+|..+.
T Consensus        49 v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~   85 (222)
T cd04173          49 IELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRP   85 (222)
T ss_pred             EEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCH
Confidence            5688899999999988777778999999999999975

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

>cd01858 NGP_1 NGP-1

Probab=98.56  E-value=8.9e-08  Score=73.38  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=21.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..+|+++|.+|+|||||+|+|.+.
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~  125 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSK  125 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcC
Confidence            467899999999999999999874

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.

>cd04133 Rop_like Rop subfamily

Probab=98.56  E-value=1.9e-07  Score=73.40  Aligned_cols=111  Identities=13%  Similarity=0.044  Sum_probs=67.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|..++|||+|+.++....-   ..+  ...|+...+. ..+ ..+                             
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f---~~~--~~~Ti~~~~~-~~~-~~~-----------------------------   45 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKF---PTD--YIPTVFDNFS-ANV-SVD-----------------------------   45 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCC---CCC--CCCcceeeeE-EEE-EEC-----------------------------
Confidence            4689999999999999999984221   111  1112211110 000 000                             


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccc----cccccch--hhHHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTP----EIVDCPG--HDILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~----qt~e~l~--~~il~~~~~nk~d~~~  167 (182)
                         ....++.+.||+|+++|........+.+|++|||.|..+.. +..    +..+.-.  ..++.....||.|+.+
T Consensus        46 ---~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~  119 (176)
T cd04133          46 ---GNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRD  119 (176)
T ss_pred             ---CEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhcc
Confidence               11267899999999999887777789999999999998642 111    1111000  1133445689999854

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,

>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=98.55  E-value=7.6e-08  Score=75.04  Aligned_cols=23  Identities=22%  Similarity=0.304  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++++|++|+|||||+|+|++.
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            66899999999999999999975

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.

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

Probab=98.52  E-value=2.9e-07  Score=69.67  Aligned_cols=37  Identities=11%  Similarity=0.074  Sum_probs=32.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|+||+..|..........+|++|+|.|.++.
T Consensus        48 ~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~   84 (162)
T PF00071_consen   48 VNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDE   84 (162)
T ss_dssp             EEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBH
T ss_pred             ccccccccccccccccccccccccccccccccccccc
Confidence            6789999999999887666777999999999999864

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 ....

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

Probab=98.50  E-value=9.1e-08  Score=88.16  Aligned_cols=108  Identities=20%  Similarity=0.178  Sum_probs=65.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|++|+|||||.|+|+|...   +..-=.|+|+...-..+.                                  
T Consensus         4 ~~valvGNPNvGKTtlFN~LTG~~q---~VgNwpGvTVEkkeg~~~----------------------------------   46 (653)
T COG0370           4 LTVALVGNPNVGKTTLFNALTGANQ---KVGNWPGVTVEKKEGKLK----------------------------------   46 (653)
T ss_pred             ceEEEecCCCccHHHHHHHHhccCc---eecCCCCeeEEEEEEEEE----------------------------------
Confidence            4599999999999999999997531   011114555544322111                                  


Q ss_pred             CcccccceEEEeeCCChhHHH--------HHHHhccccCCeEEEEEEcCCCc----ccccccccchhhHHHHhHhccchh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILM--------ATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGHDILMATMLNGAAV  165 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~--------~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~~il~~~~~nk~d~  165 (182)
                         ..++.+.++|.||--++.        ..-.---..+|+++-||||..=+    ..-|..|   ..+.+...+|.+|+
T Consensus        47 ---~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeRnLyltlQLlE---~g~p~ilaLNm~D~  120 (653)
T COG0370          47 ---YKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATNLERNLYLTLQLLE---LGIPMILALNMIDE  120 (653)
T ss_pred             ---ecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccchHHHHHHHHHHHHH---cCCCeEEEeccHhh
Confidence               112679999999952211        11011126789999999998632    2223333   33445556899887


Q ss_pred             hhH
Q psy1174         166 MDA  168 (182)
Q Consensus       166 ~~~  168 (182)
                      ...
T Consensus       121 A~~  123 (653)
T COG0370         121 AKK  123 (653)
T ss_pred             HHh
Confidence            643

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=98.50  E-value=6e-07  Score=73.80  Aligned_cols=85  Identities=15%  Similarity=0.100  Sum_probs=56.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ...|+++|..++|||+|+..+....-.   .+  ...|+...+.. .+ ..                          .  
T Consensus        13 ~~KIvvvGd~~VGKTsLi~r~~~~~F~---~~--y~pTi~~~~~~-~i-~~--------------------------~--   57 (232)
T cd04174          13 RCKLVLVGDVQCGKTAMLQVLAKDCYP---ET--YVPTVFENYTA-GL-ET--------------------------E--   57 (232)
T ss_pred             eEEEEEECCCCCcHHHHHHHHhcCCCC---CC--cCCceeeeeEE-EE-EE--------------------------C--
Confidence            356899999999999999999843211   01  11122111110 00 00                          0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....+.+.||||.+.|..........+|++|||.|..+.
T Consensus        58 ----~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~   97 (232)
T cd04174          58 ----EQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRP   97 (232)
T ss_pred             ----CEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCCh
Confidence                1125688999999999987666778999999999999875

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.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.50  E-value=4.4e-07  Score=77.59  Aligned_cols=26  Identities=31%  Similarity=0.277  Sum_probs=23.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..++|+++|.+|+|||||+|+|+|..
T Consensus        37 ~~~rIllvGktGVGKSSliNsIlG~~   62 (313)
T TIGR00991        37 SSLTILVMGKGGVGKSSTVNSIIGER   62 (313)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999999853

>cd04148 RGK RGK subfamily

Probab=98.49  E-value=5.3e-07  Score=73.10  Aligned_cols=35  Identities=9%  Similarity=0.104  Sum_probs=27.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccc-cCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAA-VMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~-~aD~ailVVda~~g  140 (182)
                      ..+.++||||...+...  .... .+|++++|+|+.+.
T Consensus        50 ~~l~i~Dt~G~~~~~~~--~~~~~~ad~iilV~d~td~   85 (221)
T cd04148          50 STLVVIDHWEQEMWTED--SCMQYQGDAFVVVYSVTDR   85 (221)
T ss_pred             EEEEEEeCCCcchHHHh--HHhhcCCCEEEEEEECCCH
Confidence            67899999999844332  2344 89999999999875

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

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

Probab=98.47  E-value=6.2e-07  Score=71.41  Aligned_cols=113  Identities=13%  Similarity=0.038  Sum_probs=69.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|..|+|||||+++|.+.....     ....|+...+........                              
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~-----~~~~t~~~~~~~~~~~~~------------------------------   50 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPE-----GYPPTIGNLDPAKTIEPY------------------------------   50 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcc-----cCCCceeeeeEEEEEEeC------------------------------
Confidence            679999999999999999998543210     011122111111000000                              


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-----h---hHHHHhHhccchhhhH
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-----H---DILMATMLNGAAVMDA  168 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-----~---~il~~~~~nk~d~~~~  168 (182)
                         ....++.++||+|+.+|..-+......++++++++|........+..+.+.     +   ..+...+.||+|+.+.
T Consensus        51 ---~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~  126 (219)
T COG1100          51 ---RRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDE  126 (219)
T ss_pred             ---CCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccc
Confidence               001558889999999999877788899999999999986211111111110     1   1334456899997753

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.47  E-value=5e-07  Score=79.74  Aligned_cols=36  Identities=19%  Similarity=0.231  Sum_probs=28.4

Q ss_pred             ceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCC
Q psy1174         104 RHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       104 ~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      .++.++||||..       .+....+..++.+|++++|||+..
T Consensus        72 ~~i~i~D~aGl~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~~  114 (396)
T PRK09602         72 IPVELIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDASG  114 (396)
T ss_pred             eeEEEEEcCCcCCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence            468999999942       244456677899999999999974

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

Probab=98.47  E-value=2e-07  Score=74.78  Aligned_cols=62  Identities=13%  Similarity=0.021  Sum_probs=44.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-----cccch--hhHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-----VDCPG--HDILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-----~e~l~--~~il~~~~~nk~d~~  166 (182)
                      ..+.+.||||+.+|........+.+|++|+|+|+.+.. .-+.     .++..  ..+....+.||+|+.
T Consensus        44 ~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~-S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~  112 (200)
T smart00176       44 IRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARV-TYKNVPNWHRDLVRVCENIPIVLCGNKVDVK  112 (200)
T ss_pred             EEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChH-HHHHHHHHHHHHHHhCCCCCEEEEEECcccc
Confidence            67899999999999887777889999999999999862 1110     11111  113445668999964

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

>smart00053 DYNc Dynamin, GTPase

Probab=98.47  E-value=2.6e-07  Score=76.40  Aligned_cols=63  Identities=10%  Similarity=0.056  Sum_probs=39.0

Q ss_pred             ceEEEeeCCChhH---------H---H-HHHHhccc-cCCeEEEEEEcCCCccccccc-ccchhh----HHHHhHhccch
Q psy1174         104 RHVSFVDCPGHDI---------L---M-ATMLNGAA-VMDAALLLIGCDNAAKTPEIV-DCPGHD----ILMATMLNGAA  164 (182)
Q Consensus       104 ~~i~lIDtPGh~~---------f---~-~~~~~~~~-~aD~ailVVda~~g~~~~qt~-e~l~~~----il~~~~~nk~d  164 (182)
                      -.+++|||||...         +   + ..+..++. ..+.+++|+||..+ +..+.. +..++.    ......+||+|
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d-~~~~d~l~ia~~ld~~~~rti~ViTK~D  203 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVD-LANSDALKLAKEVDPQGERTIGVITKLD  203 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCC-CCchhHHHHHHHHHHcCCcEEEEEECCC
Confidence            5699999999842         1   1 12334445 45699999999988 666542 322111    12224589999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      ..+
T Consensus       204 ~~~  206 (240)
T smart00053      204 LMD  206 (240)
T ss_pred             CCC
Confidence            764

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

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.45  E-value=2.5e-07  Score=72.74  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=21.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .+++++|.+|+|||||+|+|++..
T Consensus       118 ~~~~~vG~pnvGKSslin~l~~~~  141 (172)
T cd04178         118 ITVGVVGFPNVGKSSLINSLKRSR  141 (172)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCcc
Confidence            579999999999999999999743

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

>cd04129 Rho2 Rho2 subfamily

Probab=98.45  E-value=7.1e-07  Score=70.01  Aligned_cols=64  Identities=6%  Similarity=0.026  Sum_probs=39.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-----cccch--hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-----VDCPG--HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-----~e~l~--~~il~~~~~nk~d~~~  167 (182)
                      ..+.+.||||+..|........+.+|+++++.|.....-....     .+...  ..+....+.||+|+.+
T Consensus        49 ~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~  119 (187)
T cd04129          49 VQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQ  119 (187)
T ss_pred             EEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhh
Confidence            4578899999987765433456889999999998764211000     00000  1133446699999754

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).

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.40  E-value=8.5e-07  Score=76.16  Aligned_cols=36  Identities=19%  Similarity=0.270  Sum_probs=28.2

Q ss_pred             ceEEEeeCCCh----hH---HHHHHHhccccCCeEEEEEEcCC
Q psy1174         104 RHVSFVDCPGH----DI---LMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       104 ~~i~lIDtPGh----~~---f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      .++.++||||.    ..   +....+..++.||++++|||+..
T Consensus        69 v~i~l~D~aGlv~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~  111 (318)
T cd01899          69 VPVELIDVAGLVPGAHEGKGLGNKFLDDLRDADALIHVVDASG  111 (318)
T ss_pred             ceEEEEECCCCCCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence            46999999997    22   33345667899999999999974

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.

>cd01855 YqeH YqeH

Probab=98.39  E-value=3.5e-07  Score=72.09  Aligned_cols=23  Identities=26%  Similarity=0.276  Sum_probs=21.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+++++|.+|+|||||+|+|.+.
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~  150 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKK  150 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHh
Confidence            57999999999999999999864

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.

>KOG0090|consensus

Probab=98.38  E-value=4.7e-07  Score=73.34  Aligned_cols=37  Identities=24%  Similarity=0.402  Sum_probs=30.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccc---cCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAA---VMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~---~aD~ailVVda~~g  140 (182)
                      ..+++||-|||.+.......-+.   .+-++++|||+..-
T Consensus        82 ~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f  121 (238)
T KOG0090|consen   82 ENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATF  121 (238)
T ss_pred             cceEEEeCCCcHHHHHHHHHHccccccceeEEEEEecccc
Confidence            44899999999998887766664   88899999999864

>KOG1489|consensus

Probab=98.37  E-value=8e-07  Score=75.84  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=20.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +-.|+++|-+|+|||||+++|+.
T Consensus       196 iadvGLVG~PNAGKSTLL~als~  218 (366)
T KOG1489|consen  196 IADVGLVGFPNAGKSTLLNALSR  218 (366)
T ss_pred             ecccceecCCCCcHHHHHHHhhc
Confidence            44689999999999999999984

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.34  E-value=5.7e-07  Score=68.79  Aligned_cols=25  Identities=36%  Similarity=0.376  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...+++++|++|+|||||+|+|++.
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~  123 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNK  123 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHcc
Confidence            3467999999999999999999974

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.

>KOG0080|consensus

Probab=98.33  E-value=9.3e-07  Score=68.91  Aligned_cols=111  Identities=12%  Similarity=0.055  Sum_probs=72.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeecc--ccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGY--ANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+.|.+||.+|.|||+|+-.++...-+   .+  .-.|+...+  ..+.+                             .
T Consensus        11 t~KiLlIGeSGVGKSSLllrFv~~~fd---~~--~~~tIGvDFkvk~m~v-----------------------------d   56 (209)
T KOG0080|consen   11 TFKILLIGESGVGKSSLLLRFVSNTFD---DL--HPTTIGVDFKVKVMQV-----------------------------D   56 (209)
T ss_pred             eEEEEEEccCCccHHHHHHHHHhcccC---cc--CCceeeeeEEEEEEEE-----------------------------c
Confidence            467999999999999999988743211   11  112232222  11222                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccc----cchhhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVD----CPGHDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e----~l~~~il~~~~~nk~d~~  166 (182)
                            ....++.+-||.|.++|..-.-+..+.|-++|+|-|...-.    .....+|    +-+|.+.-+...||+|..
T Consensus        57 ------g~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDke  130 (209)
T KOG0080|consen   57 ------GKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKE  130 (209)
T ss_pred             ------CceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccch
Confidence                  01167999999999999987777779999999999998631    1111111    224667777889999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      .
T Consensus       131 s  131 (209)
T KOG0080|consen  131 S  131 (209)
T ss_pred             h
Confidence            4

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

Probab=98.32  E-value=8.5e-07  Score=74.91  Aligned_cols=25  Identities=16%  Similarity=0.228  Sum_probs=22.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .+||.|+|.+|+|||||++.|.+..
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~~   28 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNSD   28 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhcc
Confidence            4689999999999999999998643

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.32  E-value=8e-07  Score=76.03  Aligned_cols=83  Identities=14%  Similarity=0.203  Sum_probs=55.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      -.|++||.+++|||||+++|++..+.          .-+..|++.+         +.|.             ...+.+  
T Consensus        64 a~v~lVGfPsvGKStLL~~LTnt~se----------va~y~FTTl~---------~VPG-------------~l~Y~g--  109 (365)
T COG1163          64 ATVALVGFPSVGKSTLLNKLTNTKSE----------VADYPFTTLE---------PVPG-------------MLEYKG--  109 (365)
T ss_pred             eEEEEEcCCCccHHHHHHHHhCCCcc----------ccccCceecc---------cccc-------------eEeecC--
Confidence            46899999999999999999975421          0111121111         1110             111233  


Q ss_pred             CcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            -+|-++|+||.-       .--+++++.++.||.+++|+|+.+.
T Consensus       110 ------a~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld~~~~  153 (365)
T COG1163         110 ------AQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFED  153 (365)
T ss_pred             ------ceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEecCCC
Confidence                  789999999952       1224577778999999999999976

>KOG0394|consensus

Probab=98.31  E-value=6.4e-07  Score=71.06  Aligned_cols=115  Identities=12%  Similarity=0.056  Sum_probs=71.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +..+.|.++|.+|+|||+|++.+...     +-+.+...|+...+.+-.++-                   +        
T Consensus         7 ~~lLKViiLGDsGVGKtSLmn~yv~~-----kF~~qykaTIgadFltKev~V-------------------d--------   54 (210)
T KOG0394|consen    7 RTLLKVIILGDSGVGKTSLMNQYVNK-----KFSQQYKATIGADFLTKEVQV-------------------D--------   54 (210)
T ss_pred             ccceEEEEeCCCCccHHHHHHHHHHH-----HHHHHhccccchhheeeEEEE-------------------c--------
Confidence            45678999999999999999999731     223344555554443222100                   0        


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchhh-------HHHHhHhccc
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGHD-------ILMATMLNGA  163 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~~-------il~~~~~nk~  163 (182)
                      +      ....+-+=||.|.++|-.--..--+.||.++||-|.+...    +...-.|+|.++       .+-+.+.||+
T Consensus        55 ~------~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKi  128 (210)
T KOG0394|consen   55 D------RSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKI  128 (210)
T ss_pred             C------eEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccc
Confidence            0      0123455899999999874433348999999998887531    222223333332       2233668999


Q ss_pred             hhhh
Q psy1174         164 AVMD  167 (182)
Q Consensus       164 d~~~  167 (182)
                      |+.+
T Consensus       129 D~~~  132 (210)
T KOG0394|consen  129 DVDG  132 (210)
T ss_pred             cCCC
Confidence            9854

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.29  E-value=1.4e-06  Score=71.07  Aligned_cols=26  Identities=19%  Similarity=0.220  Sum_probs=23.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+...|+|+|+.++|||||+|.|++.
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~   30 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGT   30 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCC
Confidence            34567999999999999999999985

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

>KOG0094|consensus

Probab=98.27  E-value=1.3e-06  Score=69.88  Aligned_cols=119  Identities=12%  Similarity=0.111  Sum_probs=80.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|..+.|||+|+.++....-+     ...+-|+.+.|...++|...                             
T Consensus        23 ~KlVflGdqsVGKTslItRf~yd~fd-----~~YqATIGiDFlskt~~l~d-----------------------------   68 (221)
T KOG0094|consen   23 YKLVFLGDQSVGKTSLITRFMYDKFD-----NTYQATIGIDFLSKTMYLED-----------------------------   68 (221)
T ss_pred             EEEEEEccCccchHHHHHHHHHhhhc-----ccccceeeeEEEEEEEEEcC-----------------------------
Confidence            56899999999999999999843222     12445676666544442211                             


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh--------hHHHHhHhccchhhhHH
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH--------DILMATMLNGAAVMDAA  169 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~--------~il~~~~~nk~d~~~~~  169 (182)
                          -..++-+=||.|+++|..-+-+.++.+.+||+|-|..+-.-..+|..-|+-        ..+.+...||.|+.+..
T Consensus        69 ----~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkr  144 (221)
T KOG0094|consen   69 ----RTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKR  144 (221)
T ss_pred             ----cEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchh
Confidence                015677899999999999888889999999999999874112222221111        13344568999999866


Q ss_pred             HHhhh
Q psy1174         170 LLLIG  174 (182)
Q Consensus       170 ~~~~~  174 (182)
                      +.-++
T Consensus       145 qvs~e  149 (221)
T KOG0094|consen  145 QVSIE  149 (221)
T ss_pred             hhhHH
Confidence            55443

>PLN00023 GTP-binding protein; Provisional

Probab=98.27  E-value=3.3e-06  Score=72.79  Aligned_cols=37  Identities=11%  Similarity=0.090  Sum_probs=32.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.|.||+|++.|....-...+.+|++|+|+|..+-
T Consensus        83 v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr  119 (334)
T PLN00023         83 FFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQR  119 (334)
T ss_pred             EEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCH
Confidence            5689999999999988777778999999999999864

>KOG0098|consensus

Probab=98.23  E-value=1.3e-06  Score=69.39  Aligned_cols=112  Identities=14%  Similarity=0.111  Sum_probs=69.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeee--ccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKL--GYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ....+.++|..+.|||.|+-++....-   ..-  .-.|+-+  +...+.+.                            
T Consensus         5 ~~fKyIiiGd~gVGKSclllrf~~krF---~~~--hd~TiGvefg~r~~~id----------------------------   51 (216)
T KOG0098|consen    5 YLFKYIIIGDTGVGKSCLLLRFTDKRF---QPV--HDLTIGVEFGARMVTID----------------------------   51 (216)
T ss_pred             ceEEEEEECCCCccHHHHHHHHhccCc---ccc--ccceeeeeeceeEEEEc----------------------------
Confidence            445789999999999999999874211   100  0022222  22222220                            


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccc---cccccchhhHHHHhHhccchhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTP---EIVDCPGHDILMATMLNGAAVM  166 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~---qt~e~l~~~il~~~~~nk~d~~  166 (182)
                             ...-++.+-||.||+.|..-+-+.-+.|-+||||-|...-+    +..   ..+++..+.+.-+...||+|+.
T Consensus        52 -------~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~  124 (216)
T KOG0098|consen   52 -------GKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLE  124 (216)
T ss_pred             -------CceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhh
Confidence                   01157899999999999998888889999999999987542    111   1112111222233458999987


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      .
T Consensus       125 ~  125 (216)
T KOG0098|consen  125 A  125 (216)
T ss_pred             c
Confidence            5

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.23  E-value=1.1e-06  Score=77.88  Aligned_cols=23  Identities=39%  Similarity=0.612  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +.|+|+|++++|||||+++|.++
T Consensus        18 IyIGvvGpvrtGKSTfIn~fm~q   40 (492)
T TIGR02836        18 IYIGVVGPVRTGKSTFIKKFMEL   40 (492)
T ss_pred             EEEEEEcCCCCChHHHHHHHHhh
Confidence            56899999999999999999976

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.22  E-value=1.7e-06  Score=74.66  Aligned_cols=60  Identities=17%  Similarity=-0.027  Sum_probs=36.0

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccccccccchhhHHHHhHhccchhhh
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTPEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                      +..+.||||+|...-..   ..+..||.+++|++...|. ++...+..+.  +.-...+||+|..+
T Consensus       148 g~d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~~gd~iq~~k~gi~E--~aDIiVVNKaDl~~  208 (332)
T PRK09435        148 GYDVILVETVGVGQSET---AVAGMVDFFLLLQLPGAGDELQGIKKGIME--LADLIVINKADGDN  208 (332)
T ss_pred             CCCEEEEECCCCccchh---HHHHhCCEEEEEecCCchHHHHHHHhhhhh--hhheEEeehhcccc
Confidence            37799999999863222   2367899999998744441 2221111111  11246699999764

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.21  E-value=1.6e-06  Score=65.31  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=20.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++++|.+|+|||||+|+|.+.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~  106 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGK  106 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999999864

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.

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

Probab=98.20  E-value=4.5e-06  Score=77.60  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+|+++|.+|+|||||+|+|+|.
T Consensus       119 lrIvLVGKTGVGKSSLINSILGe  141 (763)
T TIGR00993       119 LNILVLGKSGVGKSATINSIFGE  141 (763)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcc
Confidence            57999999999999999999975

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.

>KOG0075|consensus

Probab=98.19  E-value=6.8e-07  Score=68.72  Aligned_cols=63  Identities=13%  Similarity=0.085  Sum_probs=47.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh---------HHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD---------ILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~---------il~~~~~nk~d~~~  167 (182)
                      -.+-+-|.||...|.....+.-+.+++++++|||.+.+-....++-| |.         +.+..|.||+|..+
T Consensus        65 vtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL-~~LL~k~~l~gip~LVLGnK~d~~~  136 (186)
T KOG0075|consen   65 VTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSEL-HDLLDKPSLTGIPLLVLGNKIDLPG  136 (186)
T ss_pred             eEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHH-HHHhcchhhcCCcEEEecccccCcc
Confidence            45778999999999999888889999999999999854333334433 22         34557789998765

>PRK12288 GTPase RsgA; Reviewed

Probab=98.19  E-value=1.4e-06  Score=75.67  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=20.5

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|++|+|||||+|+|++..
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~  229 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEA  229 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhcccc
Confidence            47999999999999999999643

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=98.18  E-value=1.7e-06  Score=71.28  Aligned_cols=84  Identities=17%  Similarity=0.218  Sum_probs=50.2

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|.+.|+.+|||||....+......+  +...-|.|.+.....+..                                  
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~--dT~~L~~T~~ve~~~v~~----------------------------------   44 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPR--DTLRLEPTIDVEKSHVRF----------------------------------   44 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GG--GGGG-----SEEEEEEEC----------------------------------
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCch--hccccCCcCCceEEEEec----------------------------------
Confidence            37899999999999999887533210  111123344333221111                                  


Q ss_pred             cccccceEEEeeCCChhHHHHH-----HHhccccCCeEEEEEEcCCC
Q psy1174          99 RFQLVRHVSFVDCPGHDILMAT-----MLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~-----~~~~~~~aD~ailVVda~~g  140 (182)
                        .....+++.|+||+.+|...     ...-++.+++.|+|+|+...
T Consensus        45 --~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~   89 (232)
T PF04670_consen   45 --LSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSD   89 (232)
T ss_dssp             --TTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-S
T ss_pred             --CCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEcccc
Confidence              11267999999999877664     23345888999999999944

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.17  E-value=2.8e-06  Score=71.71  Aligned_cols=25  Identities=28%  Similarity=0.321  Sum_probs=22.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...+++++|.+|+|||||+|+|.+.
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~  144 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGK  144 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            3467999999999999999999874

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.15  E-value=3.4e-06  Score=69.56  Aligned_cols=61  Identities=10%  Similarity=0.134  Sum_probs=28.3

Q ss_pred             ceEEEeeCCChhHHHH------HHHhccc--cCCeEEEEEEcCCCcccccccccchhh-----------HHHHhHhccch
Q psy1174         104 RHVSFVDCPGHDILMA------TMLNGAA--VMDAALLLIGCDNAAKTPEIVDCPGHD-----------ILMATMLNGAA  164 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~------~~~~~~~--~aD~ailVVda~~g~~~~qt~e~l~~~-----------il~~~~~nk~d  164 (182)
                      ..+.++||||+..+..      .+...+.  ..=++++++|+..-   .....++...           ++....+||+|
T Consensus        91 ~~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~---~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~D  167 (238)
T PF03029_consen   91 DDYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFC---SDPSKFVSSLLLSLSIMLRLELPHVNVLSKID  167 (238)
T ss_dssp             -SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG----SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GG
T ss_pred             CcEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccc---cChhhHHHHHHHHHHHHhhCCCCEEEeeeccC
Confidence            3799999999865443      3333343  23467888999842   1222222111           22224599999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       168 l~~  170 (238)
T PF03029_consen  168 LLS  170 (238)
T ss_dssp             GS-
T ss_pred             ccc
Confidence            886

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.15  E-value=1.5e-06  Score=73.80  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ...+++|++|.|||||+|+|.+..
T Consensus       165 ~~svl~GqSGVGKSSLiN~L~p~~  188 (301)
T COG1162         165 KITVLLGQSGVGKSTLINALLPEL  188 (301)
T ss_pred             CeEEEECCCCCcHHHHHHhhCchh
Confidence            357899999999999999998643

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.14  E-value=2.9e-06  Score=71.15  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=22.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...+++++|.+|+|||||+|+|.+.
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~  141 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGK  141 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999999864

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.

>KOG0076|consensus

Probab=98.12  E-value=2.2e-06  Score=67.38  Aligned_cols=122  Identities=14%  Similarity=0.102  Sum_probs=70.9

Q ss_pred             ccccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCc
Q psy1174          11 WVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFP   90 (182)
Q Consensus        11 ~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (182)
                      +|..+.-.+|.|+|.-+|||||++.++=.........-.-..++...+.-.-++.                         
T Consensus        11 ~~~~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~-------------------------   65 (197)
T KOG0076|consen   11 YMFKKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIE-------------------------   65 (197)
T ss_pred             HHhhhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeeccee-------------------------
Confidence            4555666789999999999999999884211000000000011111111000000                         


Q ss_pred             ccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccch----hhHHHHhHhcc
Q psy1174          91 CLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPG----HDILMATMLNG  162 (182)
Q Consensus        91 ~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~----~~il~~~~~nk  162 (182)
                                -.+.++.|.|--|......-....-+.++++++||||.+.++....    +....    ..+....+.||
T Consensus        66 ----------v~~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lank  135 (197)
T KOG0076|consen   66 ----------VCNAPLSFWDLGGQESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANK  135 (197)
T ss_pred             ----------eccceeEEEEcCChHHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcch
Confidence                      0026799999999988887555555899999999999984322211    11111    22456678999


Q ss_pred             chhhh
Q psy1174         163 AAVMD  167 (182)
Q Consensus       163 ~d~~~  167 (182)
                      +|+.+
T Consensus       136 qd~q~  140 (197)
T KOG0076|consen  136 QDLQN  140 (197)
T ss_pred             hhhhh
Confidence            98765

>KOG0084|consensus

Probab=98.10  E-value=3.5e-06  Score=67.32  Aligned_cols=117  Identities=9%  Similarity=0.044  Sum_probs=75.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|.+||..|.|||=|+-++.+.   ++.++  ...|+...+..-++ +.                          . 
T Consensus         8 ylFKiiliGds~VGKtCL~~Rf~~~---~f~e~--~~sTIGVDf~~rt~-e~--------------------------~-   54 (205)
T KOG0084|consen    8 YLFKIILIGDSGVGKTCLLLRFKDD---TFTES--YISTIGVDFKIRTV-EL--------------------------D-   54 (205)
T ss_pred             eEEEEEEECCCCcChhhhhhhhccC---Ccchh--hcceeeeEEEEEEe-ee--------------------------c-
Confidence            4567999999999999999988742   22222  33345444432111 00                          1 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchh---hHHHHhHhccchhhhH
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH---DILMATMLNGAAVMDA  168 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~---~il~~~~~nk~d~~~~  168 (182)
                           ...-++.+=||.|+++|..-+.+.-+.|+++|+|-|..+-.    +.....|+-+|   .+...+..||+|+.+.
T Consensus        55 -----gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~  129 (205)
T KOG0084|consen   55 -----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEK  129 (205)
T ss_pred             -----ceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhh
Confidence                 11256888999999999988888889999999999998632    22222222222   2344456899998764


Q ss_pred             HH
Q psy1174         169 AL  170 (182)
Q Consensus       169 ~~  170 (182)
                      .+
T Consensus       130 ~~  131 (205)
T KOG0084|consen  130 RV  131 (205)
T ss_pred             ee
Confidence            33

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.10  E-value=1.9e-06  Score=71.30  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=20.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++++|++|+|||||+|+|++.
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~  143 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPS  143 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhh
Confidence            46899999999999999999964

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

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.09  E-value=3e-06  Score=72.86  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=22.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..+|.|+|-+|+|||||+|+|++..
T Consensus       132 ~~~v~vvG~PNVGKSslIN~L~~k~  156 (322)
T COG1161         132 KIRVGVVGYPNVGKSTLINRLLGKK  156 (322)
T ss_pred             ceEEEEEcCCCCcHHHHHHHHhccc
Confidence            4679999999999999999999743

>KOG0074|consensus

Probab=98.08  E-value=2.8e-06  Score=64.97  Aligned_cols=109  Identities=17%  Similarity=0.196  Sum_probs=71.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +-+++..+|--++||||++..|.+.-.        +.++...+|...++                               
T Consensus        16 rEirilllGldnAGKTT~LKqL~sED~--------~hltpT~GFn~k~v-------------------------------   56 (185)
T KOG0074|consen   16 REIRILLLGLDNAGKTTFLKQLKSEDP--------RHLTPTNGFNTKKV-------------------------------   56 (185)
T ss_pred             ceEEEEEEecCCCcchhHHHHHccCCh--------hhccccCCcceEEE-------------------------------
Confidence            346789999999999999999976421        33333333321111                               


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh--------hHHHHhHhccchhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH--------DILMATMLNGAAVM  166 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~--------~il~~~~~nk~d~~  166 (182)
                         ++....++++-|..|......-........|+.|+|||+++..+..++-+++..        .+++..|-||+|..
T Consensus        57 ---~~~g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdll  132 (185)
T KOG0074|consen   57 ---EYDGTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLL  132 (185)
T ss_pred             ---eecCcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHH
Confidence               112237899999999987777666777889999999999875333333332211        13344678888854

>KOG0092|consensus

Probab=98.07  E-value=1.7e-06  Score=68.94  Aligned_cols=113  Identities=14%  Similarity=0.068  Sum_probs=69.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|+++|..++|||||+-++....-.   +-  ..-|+...|....+.-.                            
T Consensus         4 ~~~KvvLLG~~~VGKSSlV~Rfvk~~F~---e~--~e~TIGaaF~tktv~~~----------------------------   50 (200)
T KOG0092|consen    4 REFKVVLLGDSGVGKSSLVLRFVKDQFH---EN--IEPTIGAAFLTKTVTVD----------------------------   50 (200)
T ss_pred             ceEEEEEECCCCCCchhhhhhhhhCccc---cc--cccccccEEEEEEEEeC----------------------------
Confidence            3457899999999999999988742211   10  11133332321111000                            


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc--------ccccccccchhhHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA--------KTPEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~--------~~~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                           ....++-+=||.|.++|..-.-...+.|++||+|-|.++-.        +..- .+.....+..+...||+|+..
T Consensus        51 -----~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL-~~~~~~~~vialvGNK~DL~~  124 (200)
T KOG0092|consen   51 -----DNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKEL-QRQASPNIVIALVGNKADLLE  124 (200)
T ss_pred             -----CcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHH-HhhCCCCeEEEEecchhhhhh
Confidence                 00156788999999999876666669999999999999742        1110 111112344556699999775

>cd04103 Centaurin_gamma Centaurin gamma

Probab=98.06  E-value=1.7e-05  Score=60.80  Aligned_cols=32  Identities=19%  Similarity=0.149  Sum_probs=25.0

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+-||+|.....     ....+|++++|.|..+-
T Consensus        47 ~~l~i~D~~g~~~~~-----~~~~~~~~ilv~d~~~~   78 (158)
T cd04103          47 HLLLIRDEGGAPDAQ-----FASWVDAVIFVFSLENE   78 (158)
T ss_pred             EEEEEEECCCCCchh-----HHhcCCEEEEEEECCCH
Confidence            568889999997532     23568999999999875

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.

>PRK13768 GTPase; Provisional

Probab=98.03  E-value=6.3e-06  Score=68.46  Aligned_cols=64  Identities=23%  Similarity=0.248  Sum_probs=38.3

Q ss_pred             ceEEEeeCCChhHHHH------HHHhcccc--CCeEEEEEEcCCCcccccccccchh---------hHHHHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDILMA------TMLNGAAV--MDAALLLIGCDNAAKTPEIVDCPGH---------DILMATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~------~~~~~~~~--aD~ailVVda~~g~~~~qt~e~l~~---------~il~~~~~nk~d~~  166 (182)
                      ..+.++||||...+..      .+...+..  ++++++|+|+..+ ......+....         .+.....+||+|..
T Consensus        97 ~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~-~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~  175 (253)
T PRK13768         97 ADYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLA-KTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLL  175 (253)
T ss_pred             CCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHh-CCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhc
Confidence            3689999999755321      22222322  8999999999876 44433221111         11233568999987


Q ss_pred             hH
Q psy1174         167 DA  168 (182)
Q Consensus       167 ~~  168 (182)
                      +.
T Consensus       176 ~~  177 (253)
T PRK13768        176 SE  177 (253)
T ss_pred             Cc
Confidence            53

>KOG0078|consensus

Probab=98.02  E-value=1.7e-05  Score=63.98  Aligned_cols=110  Identities=15%  Similarity=0.080  Sum_probs=71.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|.++|-+++|||.++-++....-.     .....|+.+.+...++ .++                          +
T Consensus        11 ~~~kvlliGDs~vGKt~~l~rf~d~~f~-----~~~~sTiGIDFk~kti-~l~--------------------------g   58 (207)
T KOG0078|consen   11 YLFKLLLIGDSGVGKTCLLLRFSDDSFN-----TSFISTIGIDFKIKTI-ELD--------------------------G   58 (207)
T ss_pred             eEEEEEEECCCCCchhHhhhhhhhccCc-----CCccceEEEEEEEEEE-EeC--------------------------C
Confidence            3467899999999999999999732110     0122344444432222 000                          0


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc--------hh---hHHHHhHhccch
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP--------GH---DILMATMLNGAA  164 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l--------~~---~il~~~~~nk~d  164 (182)
                            ..-.+-+.||.|.++|..-.-+..+.|++++||+|....    ++-+.+        .|   .+..+.+.||+|
T Consensus        59 ------~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne----~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D  128 (207)
T KOG0078|consen   59 ------KKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNE----KSFENIRNWIKNIDEHASDDVVKILVGNKCD  128 (207)
T ss_pred             ------eEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccch----HHHHHHHHHHHHHHhhCCCCCcEEEeecccc
Confidence                  114577899999999999888888999999999999865    222211        01   133345689999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       129 ~~~  131 (207)
T KOG0078|consen  129 LEE  131 (207)
T ss_pred             ccc
Confidence            876

>PRK12289 GTPase RsgA; Reviewed

Probab=98.01  E-value=4.9e-06  Score=72.42  Aligned_cols=22  Identities=18%  Similarity=0.205  Sum_probs=20.0

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++++|++|+|||||+|+|++.
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~  195 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPD  195 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCc
Confidence            4799999999999999999964

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.99  E-value=4e-06  Score=70.82  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=21.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..++++|++|+|||||+|+|++..
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~  185 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDL  185 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchh
Confidence            568999999999999999999743

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.98  E-value=6.9e-06  Score=71.56  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+|.++|.+|+|||||+|+|++.
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~  177 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQ  177 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhh
Confidence            57999999999999999999964

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.

>KOG0070|consensus

Probab=97.97  E-value=1.2e-06  Score=69.16  Aligned_cols=65  Identities=8%  Similarity=0.055  Sum_probs=48.6

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh--------hHHHHhHhccchhhh
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH--------DILMATMLNGAAVMD  167 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~--------~il~~~~~nk~d~~~  167 (182)
                      +.++++-|.-|+..++.-........+++|+|||+.+-++....++.|..        ..+...+.||+|+.+
T Consensus        60 n~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~  132 (181)
T KOG0070|consen   60 NISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPG  132 (181)
T ss_pred             ceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccc
Confidence            37899999999999998888888999999999999986555555543311        123346688888663

>KOG0410|consensus

Probab=97.93  E-value=4.5e-05  Score=65.59  Aligned_cols=84  Identities=23%  Similarity=0.255  Sum_probs=53.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhce-eeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNI-TIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~-t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...|+++|..|+|||||+++|++....  +.+  +-. |.+....                                  
T Consensus       177 s~pviavVGYTNaGKsTLikaLT~Aal~--p~d--rLFATLDpT~h----------------------------------  218 (410)
T KOG0410|consen  177 SSPVIAVVGYTNAGKSTLIKALTKAALY--PND--RLFATLDPTLH----------------------------------  218 (410)
T ss_pred             CCceEEEEeecCccHHHHHHHHHhhhcC--ccc--hhheeccchhh----------------------------------
Confidence            4567999999999999999999854321  000  000 1111000                                  


Q ss_pred             CCCCcccccceEEEeeCCChh---------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHD---------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~---------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        ...-.++..+.+.||-|+-         .|.. +..-...||..+=|+|...+
T Consensus       219 --~a~Lpsg~~vlltDTvGFisdLP~~LvaAF~A-TLeeVaeadlllHvvDiShP  270 (410)
T KOG0410|consen  219 --SAHLPSGNFVLLTDTVGFISDLPIQLVAAFQA-TLEEVAEADLLLHVVDISHP  270 (410)
T ss_pred             --hccCCCCcEEEEeechhhhhhCcHHHHHHHHH-HHHHHhhcceEEEEeecCCc
Confidence              0011223678899999972         3443 34556889999999999977

>PRK13796 GTPase YqeH; Provisional

Probab=97.91  E-value=1e-05  Score=70.60  Aligned_cols=24  Identities=25%  Similarity=0.221  Sum_probs=21.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++.++|.+|+|||||+|+|++.
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~  183 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKE  183 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhh
Confidence            457999999999999999999853

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.91  E-value=4.2e-05  Score=64.97  Aligned_cols=61  Identities=15%  Similarity=-0.014  Sum_probs=35.4

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccccccccchhhHHHHhHhccchhhhH
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTPEIVDCPGHDILMATMLNGAAVMDA  168 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~qt~e~l~~~il~~~~~nk~d~~~~  168 (182)
                      .+.+.||||||...-.   ...+..+|.++++.....+. ++.......  ......++||+|....
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~~~~el~~~~~~l~--~~~~ivv~NK~Dl~~~  187 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPGTGDDLQGIKAGLM--EIADIYVVNKADGEGA  187 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCCccHHHHHHHHHHh--hhccEEEEEcccccch
Confidence            4789999999975322   23467789988886555431 111111111  1223467999998753

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.

>cd01856 YlqF YlqF

Probab=97.90  E-value=1.7e-05  Score=61.59  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=21.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ++++++|.+|+|||||+++|.+.
T Consensus       116 ~~~~~~G~~~vGKstlin~l~~~  138 (171)
T cd01856         116 IRAMVVGIPNVGKSTLINRLRGK  138 (171)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            57999999999999999999864

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=97.90  E-value=4.4e-05  Score=60.84  Aligned_cols=35  Identities=14%  Similarity=-0.010  Sum_probs=27.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.+.||+|...+.  .......+|++|+|.|..+.
T Consensus        66 v~l~iwDTaG~~~~~--~~~~~~~ad~iilv~d~t~~  100 (195)
T cd01873          66 VSLRLWDTFGDHDKD--RRFAYGRSDVVLLCFSIASP  100 (195)
T ss_pred             EEEEEEeCCCChhhh--hcccCCCCCEEEEEEECCCh
Confidence            678999999997643  23356899999999999865

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=97.90  E-value=1.8e-05  Score=69.37  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=21.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++|+|+|.+|+|||||+|+|.|.
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl   58 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGL   58 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT-
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999864

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.

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

Probab=97.86  E-value=4.2e-05  Score=58.56  Aligned_cols=35  Identities=14%  Similarity=0.139  Sum_probs=26.5

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .+.+.||||||....   ....+..||-+++|+....+
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~  125 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAG  125 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCch
Confidence            367999999996533   34578889999998877643

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.

>KOG0095|consensus

Probab=97.86  E-value=1.9e-05  Score=61.02  Aligned_cols=116  Identities=13%  Similarity=0.102  Sum_probs=74.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +-...|+++|..|.|||-|+..+....-.   .  -+|-|+...+.-.++ +.                           
T Consensus         5 kflfkivlvgnagvgktclvrrftqglfp---p--gqgatigvdfmiktv-ev---------------------------   51 (213)
T KOG0095|consen    5 KFLFKIVLVGNAGVGKTCLVRRFTQGLFP---P--GQGATIGVDFMIKTV-EV---------------------------   51 (213)
T ss_pred             ceeEEEEEEccCCcCcchhhhhhhccCCC---C--CCCceeeeeEEEEEE-EE---------------------------
Confidence            34467999999999999999999833211   0  134455555532221 00                           


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----cc---ccccccchhhHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KT---PEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~---~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                           ..++-++-+-||.|.++|..-..+.-+-|++.|||-|..-..    .-   .+.+++-+..++.....||+|..|
T Consensus        52 -----~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~d  126 (213)
T KOG0095|consen   52 -----NGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLAD  126 (213)
T ss_pred             -----CCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhh
Confidence                 012367888999999999998888889999999998876431    00   111112222244445689999877


Q ss_pred             H
Q psy1174         168 A  168 (182)
Q Consensus       168 ~  168 (182)
                      +
T Consensus       127 r  127 (213)
T KOG0095|consen  127 R  127 (213)
T ss_pred             h
Confidence            4

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=97.86  E-value=1.1e-05  Score=69.95  Aligned_cols=27  Identities=22%  Similarity=0.327  Sum_probs=23.6

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +....+|.++|+.|+||||++|.|.+.
T Consensus        20 ~Gi~f~im~~G~sG~GKttfiNtL~~~   46 (373)
T COG5019          20 KGIDFTIMVVGESGLGKTTFINTLFGT   46 (373)
T ss_pred             cCCceEEEEecCCCCchhHHHHhhhHh
Confidence            445578999999999999999999975

>KOG1954|consensus

Probab=97.85  E-value=1.4e-05  Score=69.83  Aligned_cols=68  Identities=24%  Similarity=0.246  Sum_probs=48.1

Q ss_pred             ceEEEeeCCChh-----------HHHHHHHhccccCCeEEEEEEcCCCcccccccccch----hhHHHHhHhccchhhhH
Q psy1174         104 RHVSFVDCPGHD-----------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----HDILMATMLNGAAVMDA  168 (182)
Q Consensus       104 ~~i~lIDtPGh~-----------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~~il~~~~~nk~d~~~~  168 (182)
                      ..+++|||||.-           +|......=+..+|.++|+.|+..=.+..++++++.    |--.....+||+|+++-
T Consensus       147 e~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~EdkiRVVLNKADqVdt  226 (532)
T KOG1954|consen  147 ESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHEDKIRVVLNKADQVDT  226 (532)
T ss_pred             hheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCcceeEEEeccccccCH
Confidence            579999999962           455555555688999999999986335666666553    33334467999999984


Q ss_pred             HHH
Q psy1174         169 ALL  171 (182)
Q Consensus       169 ~~~  171 (182)
                      .+|
T Consensus       227 qqL  229 (532)
T KOG1954|consen  227 QQL  229 (532)
T ss_pred             HHH
Confidence            444

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=97.84  E-value=4.9e-05  Score=63.45  Aligned_cols=61  Identities=15%  Similarity=0.065  Sum_probs=36.8

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHH---hHhccchhhhHHH
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMA---TMLNGAAVMDAAL  170 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~---~~~nk~d~~~~~~  170 (182)
                      ++.+.||.|-|-..---+   -...+|.+++|+-..-| -.-|...   -.++-+   +.+||+|....+.
T Consensus       121 G~D~IiiETVGvGQsE~~---I~~~aD~~v~v~~Pg~G-D~iQ~~K---aGimEiaDi~vVNKaD~~gA~~  184 (266)
T PF03308_consen  121 GFDVIIIETVGVGQSEVD---IADMADTVVLVLVPGLG-DEIQAIK---AGIMEIADIFVVNKADRPGADR  184 (266)
T ss_dssp             T-SEEEEEEESSSTHHHH---HHTTSSEEEEEEESSTC-CCCCTB----TTHHHH-SEEEEE--SHHHHHH
T ss_pred             CCCEEEEeCCCCCccHHH---HHHhcCeEEEEecCCCc-cHHHHHh---hhhhhhccEEEEeCCChHHHHH
Confidence            467888899885433322   24778999999999887 4444433   233333   6699999765443

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=97.84  E-value=1.3e-05  Score=68.18  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=21.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ...++++|++|+|||||+|+|++..
T Consensus       164 gk~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        164 GKVTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCc
Confidence            3468999999999999999998743

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.82  E-value=2.2e-06  Score=73.55  Aligned_cols=24  Identities=17%  Similarity=0.131  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...++++|+.|+||||++..|.+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~  136 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAH  136 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            456789999999999999999874

>TIGR00092 GTP-binding protein YchF

Probab=97.82  E-value=4.2e-05  Score=66.94  Aligned_cols=37  Identities=22%  Similarity=0.241  Sum_probs=29.0

Q ss_pred             ceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++|.||-..       +....+.-++.+|+.+.||++.+.
T Consensus        67 a~i~~~DiaGlv~gAs~g~Glgn~fL~~ir~~d~l~hVvr~f~d  110 (368)
T TIGR00092        67 TTTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVVRCFED  110 (368)
T ss_pred             ceEEEEeccccccchhcccCcchHHHHHHHhCCEEEEEEeCCCC
Confidence            5789999999632       444566678999999999999753

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.

>KOG0077|consensus

Probab=97.81  E-value=4.2e-05  Score=59.91  Aligned_cols=64  Identities=13%  Similarity=0.003  Sum_probs=47.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH--------HHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI--------LMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i--------l~~~~~nk~d~~~  167 (182)
                      -+++-+|--||..-..-.-..+..+|+++++|||.+-++....++.+.-.+        ....+.||+|...
T Consensus        64 m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~  135 (193)
T KOG0077|consen   64 MTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPY  135 (193)
T ss_pred             ceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCC
Confidence            678889999998888777788899999999999998655555555332211        1235689998664

>KOG0395|consensus

Probab=97.79  E-value=9.7e-06  Score=65.01  Aligned_cols=64  Identities=13%  Similarity=0.088  Sum_probs=45.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc---ccccccccc-----hhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA---KTPEIVDCP-----GHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~---~~~qt~e~l-----~~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||+|...|.......+..+|+-++|.+..+-.   -..+.++.+     ...+++....||+|+..
T Consensus        51 ~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~  122 (196)
T KOG0395|consen   51 CMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLER  122 (196)
T ss_pred             EEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchh
Confidence            66889999999999998888899999999999998742   011111111     11234556699999875

>KOG1547|consensus

Probab=97.79  E-value=1.1e-05  Score=66.82  Aligned_cols=28  Identities=18%  Similarity=0.249  Sum_probs=23.3

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      |+..-..||.|+|++|.|||||++.|..
T Consensus        41 mk~GF~FNIMVVgqSglgkstlinTlf~   68 (336)
T KOG1547|consen   41 MKTGFDFNIMVVGQSGLGKSTLINTLFK   68 (336)
T ss_pred             HhccCceEEEEEecCCCCchhhHHHHHH
Confidence            4444557999999999999999999973

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

Probab=97.74  E-value=4.1e-05  Score=66.71  Aligned_cols=37  Identities=27%  Similarity=0.348  Sum_probs=28.6

Q ss_pred             ceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.|+|.+|..       -+-...+.-++.+|+++-||+|.+.
T Consensus        67 ~~ve~vDIAGLV~GAs~GeGLGNkFL~~IRevdaI~hVVr~f~d  110 (372)
T COG0012          67 APVEFVDIAGLVKGASKGEGLGNKFLDNIREVDAIIHVVRCFGD  110 (372)
T ss_pred             eeeEEEEecccCCCcccCCCcchHHHHhhhhcCeEEEEEEecCC
Confidence            568999999952       3444455678999999999999853

>KOG1532|consensus

Probab=97.74  E-value=8.1e-05  Score=62.84  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=20.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+..|.|+|..||||||++.+|..
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~   41 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNS   41 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHH
Confidence            345688999999999999999973

>KOG2486|consensus

Probab=97.74  E-value=4.2e-05  Score=64.44  Aligned_cols=111  Identities=14%  Similarity=0.101  Sum_probs=66.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..+.+++.|.+|.|||+|++.+...-........+.|-|..+..                                    
T Consensus       135 ~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~------------------------------------  178 (320)
T KOG2486|consen  135 KRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINH------------------------------------  178 (320)
T ss_pred             CCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeee------------------------------------
Confidence            34678999999999999999997421100000002222222211                                    


Q ss_pred             CCCcccccceEEEeeCCCh----------hHHHHHHHhcc---ccCCeEEEEEEcCCCcccccccccc----hhhHHHHh
Q psy1174          96 CTGRFQLVRHVSFVDCPGH----------DILMATMLNGA---AVMDAALLLIGCDNAAKTPEIVDCP----GHDILMAT  158 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh----------~~f~~~~~~~~---~~aD~ailVVda~~g~~~~qt~e~l----~~~il~~~  158 (182)
                          +..+.+++++|-||+          .++.+-....+   ...=-++++||+..+ +++-..+++    .|.+.+..
T Consensus       179 ----f~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~-i~~~D~~~i~~~ge~~VP~t~  253 (320)
T KOG2486|consen  179 ----FHVGKSWYEVDLPGYGRAGYGFELPADWDKFTKSYLLERENLVRVFLLVDASVP-IQPTDNPEIAWLGENNVPMTS  253 (320)
T ss_pred             ----eeccceEEEEecCCcccccCCccCcchHhHhHHHHHHhhhhhheeeeeeeccCC-CCCCChHHHHHHhhcCCCeEE
Confidence                122378999999993          23333222222   222346788999988 777554433    25577778


Q ss_pred             Hhccchhhh
Q psy1174         159 MLNGAAVMD  167 (182)
Q Consensus       159 ~~nk~d~~~  167 (182)
                      ++||+|.+.
T Consensus       254 vfTK~DK~k  262 (320)
T KOG2486|consen  254 VFTKCDKQK  262 (320)
T ss_pred             eeehhhhhh
Confidence            899999764

>cd01859 MJ1464 MJ1464

Probab=97.74  E-value=4.9e-05  Score=57.80  Aligned_cols=24  Identities=29%  Similarity=0.516  Sum_probs=21.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++.++|.+++|||||+++|.+.
T Consensus       101 ~~~~~~ig~~~~Gkssl~~~l~~~  124 (156)
T cd01859         101 EGKVGVVGYPNVGKSSIINALKGR  124 (156)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999999863

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.

>KOG0087|consensus

Probab=97.70  E-value=1.6e-05  Score=64.22  Aligned_cols=112  Identities=18%  Similarity=0.139  Sum_probs=69.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|++||.++.|||-|+.++..-.   +..  +...|+-..++...+                         ..  .   
T Consensus        15 FKiVliGDS~VGKsnLlsRftrnE---F~~--~SksTIGvef~t~t~-------------------------~v--d---   59 (222)
T KOG0087|consen   15 FKIVLIGDSAVGKSNLLSRFTRNE---FSL--ESKSTIGVEFATRTV-------------------------NV--D---   59 (222)
T ss_pred             EEEEEeCCCccchhHHHHHhcccc---cCc--ccccceeEEEEeece-------------------------ee--c---
Confidence            459999999999999999997421   111  122344443332111                         00  0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchhh---HHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGHD---ILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~~---il~~~~~nk~d~~~  167 (182)
                         ...-+..|=||.|+++|..-....-+.|-+|+||-|.....    +..+.+|...|+   +..+...||+|+..
T Consensus        60 ---~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~  133 (222)
T KOG0087|consen   60 ---GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNH  133 (222)
T ss_pred             ---CcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhh
Confidence               01145678899999999964444448899999999997651    222223333344   44556699999875

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.68  E-value=7.3e-05  Score=66.68  Aligned_cols=37  Identities=22%  Similarity=0.283  Sum_probs=26.9

Q ss_pred             ceEEEeeCCChh----HHHHHHHhc--cccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHD----ILMATMLNG--AAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~----~f~~~~~~~--~~~aD~ailVVda~~g  140 (182)
                      +.+.||||||..    ..+.++..-  ...+|-++||+||..|
T Consensus       183 ~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~G  225 (429)
T TIGR01425       183 FDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIG  225 (429)
T ss_pred             CCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccC
Confidence            679999999964    344443332  2457889999999887

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.62  E-value=0.00017  Score=63.26  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=20.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+++++|++|+||||++..|..
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999974

>KOG0093|consensus

Probab=97.60  E-value=0.00011  Score=56.61  Aligned_cols=114  Identities=11%  Similarity=0.068  Sum_probs=69.0

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .+.|+|...+|||+|+-+-.+..-.     .+.-.|+.+.+.-.++|+-+                       .      
T Consensus        23 KlliiGnssvGKTSfl~ry~ddSFt-----~afvsTvGidFKvKTvyr~~-----------------------k------   68 (193)
T KOG0093|consen   23 KLLIIGNSSVGKTSFLFRYADDSFT-----SAFVSTVGIDFKVKTVYRSD-----------------------K------   68 (193)
T ss_pred             eEEEEccCCccchhhhHHhhccccc-----cceeeeeeeeEEEeEeeecc-----------------------c------
Confidence            5899999999999998877642110     01112233333222332211                       0      


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccc---cccccchhhHHHHhHhccchhhhHHH
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTP---EIVDCPGHDILMATMLNGAAVMDAAL  170 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~---qt~e~l~~~il~~~~~nk~d~~~~~~  170 (182)
                          --++-+-||.|.++|..-.....+.|++.||+.|....+    ++.   |.+.+--..++....-||+|+.++..
T Consensus        69 ----RiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRv  143 (193)
T KOG0093|consen   69 ----RIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERV  143 (193)
T ss_pred             ----EEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCcccee
Confidence                045788999999999876666679999999999998653    111   11111111233344589999887543

>KOG1486|consensus

Probab=97.59  E-value=6.5e-05  Score=62.79  Aligned_cols=84  Identities=17%  Similarity=0.199  Sum_probs=53.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      -+|++||-+..|||||+..+.++-+.    ......|.-.....+                            ..+++  
T Consensus        63 aRValIGfPSVGKStlLs~iT~T~Se----aA~yeFTTLtcIpGv----------------------------i~y~g--  108 (364)
T KOG1486|consen   63 ARVALIGFPSVGKSTLLSKITSTHSE----AASYEFTTLTCIPGV----------------------------IHYNG--  108 (364)
T ss_pred             eEEEEecCCCccHHHHHHHhhcchhh----hhceeeeEEEeecce----------------------------EEecC--
Confidence            56999999999999999999864321    111111211111111                            11223  


Q ss_pred             CcccccceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCCCc
Q psy1174          98 GRFQLVRHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDNAA  141 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~g~  141 (182)
                            ..+-++|-||.-.       -..++++.++-||.+++|.||...+
T Consensus       109 ------a~IQllDLPGIieGAsqgkGRGRQviavArtaDlilMvLDatk~e  153 (364)
T KOG1486|consen  109 ------ANIQLLDLPGIIEGASQGKGRGRQVIAVARTADLILMVLDATKSE  153 (364)
T ss_pred             ------ceEEEecCcccccccccCCCCCceEEEEeecccEEEEEecCCcch
Confidence                  6789999999622       1224556678899999999999764

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.56  E-value=3.6e-05  Score=64.72  Aligned_cols=24  Identities=17%  Similarity=0.194  Sum_probs=20.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+...++++|+.|+||||++..|.
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA   93 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLA   93 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHH
Confidence            345678999999999999998886

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.

>cd03112 CobW_like The function of this protein family is unkown

Probab=97.55  E-value=0.00012  Score=56.49  Aligned_cols=37  Identities=16%  Similarity=0.231  Sum_probs=26.4

Q ss_pred             ceEEEeeCCChh---HHHHH-----HHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHD---ILMAT-----MLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~---~f~~~-----~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+|||||..   .....     ...+....|.++.|||+...
T Consensus        87 ~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~  131 (158)
T cd03112          87 FDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHA  131 (158)
T ss_pred             CCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHh
Confidence            457899999974   22222     33455778999999999865

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.

>KOG2655|consensus

Probab=97.54  E-value=6e-05  Score=65.64  Aligned_cols=28  Identities=18%  Similarity=0.169  Sum_probs=23.6

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ++.-..++.++|..|.|||||+|.|.+.
T Consensus        17 KkG~~ftlmvvG~sGlGKsTfiNsLf~~   44 (366)
T KOG2655|consen   17 KKGFDFTLMVVGESGLGKSTFINSLFLT   44 (366)
T ss_pred             hcCCceEEEEecCCCccHHHHHHHHHhh
Confidence            3445578999999999999999999854

>KOG1424|consensus

Probab=97.46  E-value=0.00011  Score=66.41  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=22.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +..+|+.||.+|.||||++|+|.|.
T Consensus       313 ~~vtVG~VGYPNVGKSSTINaLvG~  337 (562)
T KOG1424|consen  313 DVVTVGFVGYPNVGKSSTINALVGR  337 (562)
T ss_pred             ceeEEEeecCCCCchhHHHHHHhcC
Confidence            3578999999999999999999974

>PRK14974 cell division protein FtsY; Provisional

Probab=97.45  E-value=4e-05  Score=66.33  Aligned_cols=37  Identities=16%  Similarity=0.141  Sum_probs=26.1

Q ss_pred             ceEEEeeCCChh----HHHHHHHhc--cccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHD----ILMATMLNG--AAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~----~f~~~~~~~--~~~aD~ailVVda~~g  140 (182)
                      +.+.+|||||..    .++.++..-  ....|.++||+||..|
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g  265 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAG  265 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccc
Confidence            569999999974    344433221  2357999999999877

>KOG0086|consensus

Probab=97.38  E-value=0.00061  Score=52.96  Aligned_cols=84  Identities=14%  Similarity=0.078  Sum_probs=56.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC-CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV-QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~-~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+.++|+.|+|||-|+.+++.. ..|.      ...|+...+..-.+.                           -. 
T Consensus         9 LfKfl~iG~aGtGKSCLLh~Fie~kfkDd------ssHTiGveFgSrIin---------------------------VG-   54 (214)
T KOG0086|consen    9 LFKFLVIGSAGTGKSCLLHQFIENKFKDD------SSHTIGVEFGSRIVN---------------------------VG-   54 (214)
T ss_pred             hheeEEeccCCCChhHHHHHHHHhhhccc------ccceeeeeecceeee---------------------------ec-
Confidence            356899999999999999999832 2221      222343333221110                           00 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                           ...-++-+-||.|+++|..-.-+.-+.|-+|+||-|+..
T Consensus        55 -----gK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~Ts   93 (214)
T KOG0086|consen   55 -----GKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS   93 (214)
T ss_pred             -----CcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccc
Confidence                 011567889999999999877777788889999999875

>KOG0079|consensus

Probab=97.34  E-value=0.00025  Score=54.86  Aligned_cols=38  Identities=8%  Similarity=0.091  Sum_probs=33.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA  141 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~  141 (182)
                      -++-+-||.|.+.|...+...-+..+++++|-|...|+
T Consensus        57 VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~E   94 (198)
T KOG0079|consen   57 VKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGE   94 (198)
T ss_pred             EEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchh
Confidence            56788999999999987777778899999999999875

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=97.32  E-value=0.00049  Score=59.49  Aligned_cols=21  Identities=38%  Similarity=0.509  Sum_probs=19.5

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+++|-+|+|||||+++++.
T Consensus       161 DVGLVG~PNaGKSTlls~vS~  181 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSA  181 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhh
Confidence            589999999999999999984

>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=97.31  E-value=2.1e-05  Score=63.02  Aligned_cols=21  Identities=19%  Similarity=0.362  Sum_probs=18.9

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|+++|+.|+||||.+-.|.
T Consensus         2 ~vi~lvGptGvGKTTt~aKLA   22 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLA   22 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHH
Confidence            468999999999999998886

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 ....

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.31  E-value=0.00037  Score=62.38  Aligned_cols=37  Identities=27%  Similarity=0.362  Sum_probs=27.0

Q ss_pred             ceEEEeeCCChhHHHHHH------HhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATM------LNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~------~~~~~~aD~ailVVda~~g  140 (182)
                      +.+.+|||||.......+      +..+..+|.++||+||..|
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g  218 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG  218 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc
Confidence            468999999965433222      2345678999999999887

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=97.29  E-value=0.00015  Score=56.50  Aligned_cols=33  Identities=18%  Similarity=0.307  Sum_probs=25.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeee
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKL   57 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~   57 (182)
                      ..++|+|..|||||||+..|+.       .-+++|..+..
T Consensus         3 ~Il~ivG~k~SGKTTLie~lv~-------~L~~~G~rVa~   35 (161)
T COG1763           3 KILGIVGYKNSGKTTLIEKLVR-------KLKARGYRVAT   35 (161)
T ss_pred             cEEEEEecCCCChhhHHHHHHH-------HHHhCCcEEEE
Confidence            3589999999999999999974       23356765554

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.27  E-value=0.0004  Score=45.76  Aligned_cols=20  Identities=35%  Similarity=0.371  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|.|+.+||||||++++.
T Consensus        25 ~tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57999999999999999986

>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=97.27  E-value=0.00078  Score=52.06  Aligned_cols=37  Identities=22%  Similarity=0.233  Sum_probs=25.3

Q ss_pred             ceEEEeeCCChhHH----HHHHHhcc--ccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDIL----MATMLNGA--AVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f----~~~~~~~~--~~aD~ailVVda~~g  140 (182)
                      +.+.+|||||...+    ...+....  ...|.+++|+|+..+
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~  125 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTG  125 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCC
Confidence            56899999998533    33222211  348999999999765

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.

>KOG2423|consensus

Probab=97.25  E-value=0.00018  Score=63.52  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=23.3

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++.+.|++||.+|+|||+++|.|..
T Consensus       304 dkkqISVGfiGYPNvGKSSiINTLR~  329 (572)
T KOG2423|consen  304 DKKQISVGFIGYPNVGKSSIINTLRK  329 (572)
T ss_pred             CccceeeeeecCCCCchHHHHHHHhh
Confidence            56678899999999999999999974

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.25  E-value=0.00035  Score=61.99  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=20.1

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..|+++|+.|+||||++..|.
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA  262 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMA  262 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHH
Confidence            4679999999999999999996

>KOG2485|consensus

Probab=97.15  E-value=0.00051  Score=58.74  Aligned_cols=43  Identities=19%  Similarity=0.204  Sum_probs=28.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCcc---chhhHhhhceeeeec
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTV---RFKNELERNITIKLG   58 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~---~~~~e~~~g~t~~~~   58 (182)
                      ...+|-|+|-+|.|||||+|++.-....   .-....+.|+|+..+
T Consensus       142 ~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~  187 (335)
T KOG2485|consen  142 SEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVS  187 (335)
T ss_pred             CceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeeh
Confidence            4568999999999999999999622111   112234466666553

>PRK01889 GTPase RsgA; Reviewed

Probab=97.14  E-value=0.00025  Score=61.76  Aligned_cols=23  Identities=35%  Similarity=0.445  Sum_probs=20.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++++|++|+|||||+++|++.
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~  218 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGE  218 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            46899999999999999999864

>TIGR00235 udk uridine kinase

Probab=97.13  E-value=0.00035  Score=55.93  Aligned_cols=27  Identities=26%  Similarity=0.260  Sum_probs=23.1

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++...|+|+|++|||||||+++|.+
T Consensus         2 ~~~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         2 DKPKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCCCeEEEEEECCCCCCHHHHHHHHHH
Confidence            345567899999999999999999974

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.13  E-value=0.00034  Score=58.03  Aligned_cols=23  Identities=30%  Similarity=0.645  Sum_probs=20.6

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -|+++||+|+|||||++.+.|-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            38999999999999999998754

>KOG4181|consensus

Probab=97.11  E-value=0.00084  Score=58.42  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCcc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTV   43 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~   43 (182)
                      .+|+++|.-|+|||||+..|.+...+
T Consensus       189 ~VIgvlG~QgsGKStllslLaans~~  214 (491)
T KOG4181|consen  189 TVIGVLGGQGSGKSTLLSLLAANSLD  214 (491)
T ss_pred             eEEEeecCCCccHHHHHHHHhccChH
Confidence            46899999999999999999876543

>KOG0088|consensus

Probab=97.08  E-value=0.00022  Score=55.67  Aligned_cols=68  Identities=13%  Similarity=0.068  Sum_probs=43.4

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccc---cccchhhHHHHhHhccchhhhHHHH
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEI---VDCPGHDILMATMLNGAAVMDAALL  171 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt---~e~l~~~il~~~~~nk~d~~~~~~~  171 (182)
                      -.+++-||.|.++|..----.-+.+|+|+||.|..+..    +....   +.+++.-+-+....||+|+..+..+
T Consensus        62 a~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~V  136 (218)
T KOG0088|consen   62 ADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQV  136 (218)
T ss_pred             eeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhh
Confidence            45888999999999863222338899999999998742    11111   2222222333345899998865443

>KOG0071|consensus

Probab=97.05  E-value=0.00068  Score=52.02  Aligned_cols=64  Identities=9%  Similarity=0.110  Sum_probs=44.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----hhh----HHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----GHD----ILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~~~----il~~~~~nk~d~~~  167 (182)
                      -.+|+-|..|..+...-.-.....+-++|+|+|+.+-......++-|    +|.    .+...+.||+|+.+
T Consensus        61 ~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~  132 (180)
T KOG0071|consen   61 VKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPD  132 (180)
T ss_pred             eEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccc
Confidence            67899999999998887777788889999999998642222333222    111    11225679999875

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.05  E-value=0.00043  Score=56.64  Aligned_cols=23  Identities=30%  Similarity=0.497  Sum_probs=20.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .-.|+|||++|||||||+.+|.+
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
Confidence            34689999999999999999974

>KOG1491|consensus

Probab=97.02  E-value=0.0015  Score=56.51  Aligned_cols=37  Identities=16%  Similarity=0.122  Sum_probs=27.9

Q ss_pred             ceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      -.++++|..|..       -+-...++-++.+|+++=||+|.+.
T Consensus        84 a~l~v~DIAGLvkGAs~G~GLGN~FLs~iR~vDaifhVVr~f~d  127 (391)
T KOG1491|consen   84 AFLTVYDIAGLVKGASAGEGLGNKFLSHIRHVDAIFHVVRAFED  127 (391)
T ss_pred             eeEEEEeecccccCcccCcCchHHHHHhhhhccceeEEEEecCc
Confidence            468999999952       2444455678899999999999753

>PRK10867 signal recognition particle protein; Provisional

Probab=97.00  E-value=0.00049  Score=61.55  Aligned_cols=24  Identities=17%  Similarity=0.210  Sum_probs=20.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .++..|.++|+.|+||||++..|.
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA  121 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLA  121 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHH
Confidence            345678999999999999887775

>KOG1707|consensus

Probab=97.00  E-value=0.00081  Score=61.57  Aligned_cols=112  Identities=14%  Similarity=-0.007  Sum_probs=66.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|.-|+|||+|+=+|+...-......+-.-+++....                                    
T Consensus         8 kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPadv------------------------------------   51 (625)
T KOG1707|consen    8 KDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPADV------------------------------------   51 (625)
T ss_pred             cceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCCcc------------------------------------
Confidence            45789999999999999999998543110000000111111100                                    


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccc-cccc-----cch---hhHHHHhHhccchh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTP-EIVD-----CPG---HDILMATMLNGAAV  165 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~-qt~e-----~l~---~~il~~~~~nk~d~  165 (182)
                          ..+.-...++||+-..+-...+...++.||++.+|-++++.. +.. ++..     -+.   |-++.....||.|.
T Consensus        52 ----tPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~  127 (625)
T KOG1707|consen   52 ----TPENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDN  127 (625)
T ss_pred             ----CcCcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCC
Confidence                011134789999877666666778899999999999887641 000 1111     011   34455556899986


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       128 ~~  129 (625)
T KOG1707|consen  128 GD  129 (625)
T ss_pred             cc
Confidence            64

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.99  E-value=0.00054  Score=56.24  Aligned_cols=21  Identities=29%  Similarity=0.613  Sum_probs=19.2

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      -|+|+|++|||||||++.|.+
T Consensus        33 ~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999974

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.98  E-value=0.00065  Score=53.58  Aligned_cols=27  Identities=15%  Similarity=0.224  Sum_probs=22.8

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.+..+.++|+|..|||||||+.+|++
T Consensus         2 ~~~~~~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          2 NKTMIPLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             CCCCceEEEEECCCCChHHHHHHHHHH
Confidence            344556789999999999999999985

>TIGR00959 ffh signal recognition particle protein

Probab=96.95  E-value=0.00027  Score=63.11  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=19.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++..+.++|+.|+||||++..|.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA  120 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLA  120 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHH
Confidence            35678999999999999987775

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.

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

Probab=96.92  E-value=0.0036  Score=53.45  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+|+|.|.+|+|||||++.|..
T Consensus        51 a~viGITG~PGaGKSTli~~L~~   73 (323)
T COG1703          51 AHVIGITGVPGAGKSTLIEALGR   73 (323)
T ss_pred             CcEEEecCCCCCchHHHHHHHHH
Confidence            34799999999999999999973

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.91  E-value=0.00075  Score=49.84  Aligned_cols=25  Identities=32%  Similarity=0.522  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEEccCCCccccceeeecccc
Confidence            3458999999999999999999764

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 ....

>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=96.86  E-value=0.00077  Score=48.69  Aligned_cols=21  Identities=29%  Similarity=0.257  Sum_probs=18.9

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+|.|++||||||+++.|..
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999963

...

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.85  E-value=0.00048  Score=61.37  Aligned_cols=23  Identities=17%  Similarity=0.263  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++++|++|+||||++..|..
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998863

>KOG2484|consensus

Probab=96.84  E-value=0.00093  Score=58.80  Aligned_cols=24  Identities=33%  Similarity=0.452  Sum_probs=21.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..++|+|||-+|.||||++|+|.
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~  273 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLK  273 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHH
Confidence            355789999999999999999997

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.82  E-value=0.00058  Score=54.68  Aligned_cols=28  Identities=11%  Similarity=0.151  Sum_probs=24.3

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .....+++|+++|+.|+|||||+++|+.
T Consensus        17 ~~~~~~~~i~~~G~~gsGKTTli~~l~~   44 (207)
T TIGR00073        17 LDKHGLVVLNFMSSPGSGKTTLIEKLID   44 (207)
T ss_pred             hhhcCcEEEEEECCCCCCHHHHHHHHHH
Confidence            4455678999999999999999999974

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

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.78  E-value=0.0029  Score=55.94  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=20.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +...++++|+.|+||||++..|.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA  227 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLG  227 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999999886

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.77  E-value=0.0013  Score=52.54  Aligned_cols=25  Identities=28%  Similarity=0.272  Sum_probs=21.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ....|+|.|++|||||||++.|.+.
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4567999999999999999999753

>KOG0083|consensus

Probab=96.73  E-value=0.0006  Score=51.91  Aligned_cols=64  Identities=19%  Similarity=0.157  Sum_probs=51.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-------ccccccccchhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-------KTPEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-------~~~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                      -++-+-||.|+++|..-....-+.||+.+|+-|...-.       ...+..|+-.|++.+..+.||+|...
T Consensus        47 vklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~  117 (192)
T KOG0083|consen   47 VKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAH  117 (192)
T ss_pred             EEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccch
Confidence            56788999999999998888889999999999986532       23355667778888899999999743

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.72  E-value=0.0014  Score=52.24  Aligned_cols=23  Identities=22%  Similarity=0.457  Sum_probs=21.2

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|+|||||++.|.|..
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999999754

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.70  E-value=0.0013  Score=52.40  Aligned_cols=26  Identities=23%  Similarity=0.432  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            33458999999999999999999754

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.69  E-value=0.0014  Score=51.55  Aligned_cols=25  Identities=24%  Similarity=0.377  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        18 Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        18 GEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999754

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>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=96.69  E-value=0.0013  Score=52.61  Aligned_cols=25  Identities=24%  Similarity=0.565  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        30 G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          30 GEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            3458999999999999999999764

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.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.68  E-value=0.0012  Score=52.93  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -.|+|+|++|+|||||+|.+.|-
T Consensus        26 e~vAi~GpSGaGKSTLLnLIAGF   48 (231)
T COG3840          26 EIVAILGPSGAGKSTLLNLIAGF   48 (231)
T ss_pred             cEEEEECCCCccHHHHHHHHHhc
Confidence            35899999999999999999753

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.68  E-value=0.0013  Score=53.32  Aligned_cols=25  Identities=32%  Similarity=0.477  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=96.68  E-value=0.0013  Score=57.48  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=20.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.|+|+|.+|+|||||+..|+.
T Consensus       205 ~~~~~~~g~~~~GKtt~~~~l~~  227 (366)
T PRK14489        205 PPLLGVVGYSGTGKTTLLEKLIP  227 (366)
T ss_pred             ccEEEEecCCCCCHHHHHHHHHH
Confidence            34799999999999999999985

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.65  E-value=0.0014  Score=52.39  Aligned_cols=25  Identities=36%  Similarity=0.510  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        29 GEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.64  E-value=0.0017  Score=53.25  Aligned_cols=28  Identities=21%  Similarity=0.332  Sum_probs=22.0

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      |.-.+....++|||+|+|||||+.+|-.
T Consensus        28 l~i~~~~VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          28 LDIPKNKVTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             eeccCCceEEEECCCCcCHHHHHHHHHh
Confidence            3333445679999999999999999963

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.64  E-value=0.0014  Score=54.77  Aligned_cols=24  Identities=33%  Similarity=0.619  Sum_probs=20.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+||.|||||||+++|.|..
T Consensus        29 ~i~~iiGpNG~GKSTLLk~l~g~l   52 (258)
T COG1120          29 EITGILGPNGSGKSTLLKCLAGLL   52 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            357999999999999999998643

>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=96.63  E-value=0.0014  Score=51.68  Aligned_cols=26  Identities=31%  Similarity=0.436  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            34468999999999999999999854

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.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.63  E-value=0.0015  Score=52.08  Aligned_cols=25  Identities=24%  Similarity=0.347  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|||||||++.|.|..
T Consensus        28 G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        28 GEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.63  E-value=0.0015  Score=51.86  Aligned_cols=26  Identities=23%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            33458999999999999999999764

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.63  E-value=0.0016  Score=51.24  Aligned_cols=26  Identities=19%  Similarity=0.179  Sum_probs=22.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ...+++++|++|||||||+++|++..
T Consensus        24 ~g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          24 ARKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34679999999999999999998754

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.63  E-value=0.0016  Score=52.06  Aligned_cols=24  Identities=25%  Similarity=0.595  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          27 EFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999999854

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08233 hypothetical protein; Provisional

Probab=96.62  E-value=0.0018  Score=49.90  Aligned_cols=24  Identities=13%  Similarity=0.138  Sum_probs=21.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...|+|.|.+|||||||+..|...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            467899999999999999999753

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=96.61  E-value=0.0016  Score=52.23  Aligned_cols=26  Identities=27%  Similarity=0.420  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999998754

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.60  E-value=0.0017  Score=52.20  Aligned_cols=25  Identities=24%  Similarity=0.401  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          26 GEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999854

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.59  E-value=0.0016  Score=53.88  Aligned_cols=22  Identities=32%  Similarity=0.608  Sum_probs=20.0

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -|+|||++|||||||+.+|.+.
T Consensus        32 ~VaiIG~SGaGKSTLLR~lngl   53 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNGL   53 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            4899999999999999999864

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.59  E-value=0.0017  Score=51.42  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||++.|.|..
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        25 KMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            458999999999999999999764

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.58  E-value=0.002  Score=51.26  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        25 ~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          25 KGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999764

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=96.58  E-value=0.0016  Score=52.70  Aligned_cols=25  Identities=36%  Similarity=0.504  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|||||||+++|.|..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          26 GEIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcCCC
Confidence            3458999999999999999998754

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>KOG1490|consensus

Probab=96.58  E-value=0.0014  Score=59.25  Aligned_cols=23  Identities=17%  Similarity=0.108  Sum_probs=20.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+++.++|-+|.|||++++.++.
T Consensus       168 trTlllcG~PNVGKSSf~~~vtr  190 (620)
T KOG1490|consen  168 TRTLLVCGYPNVGKSSFNNKVTR  190 (620)
T ss_pred             cCeEEEecCCCCCcHhhcccccc
Confidence            46789999999999999988863

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.57  E-value=0.002  Score=51.30  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34458999999999999999999764

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.57  E-value=0.0018  Score=51.61  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33458999999999999999999864

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK07261 topology modulation protein; Provisional

Probab=96.56  E-value=0.0018  Score=50.50  Aligned_cols=21  Identities=33%  Similarity=0.408  Sum_probs=19.1

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +|+|+|.+|||||||...|..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999999863

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.56  E-value=0.0019  Score=50.35  Aligned_cols=25  Identities=28%  Similarity=0.553  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999864

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=96.55  E-value=0.0019  Score=52.05  Aligned_cols=25  Identities=20%  Similarity=0.421  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        13 Ge~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         13 HEHIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCc
Confidence            3468999999999999999999754

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=96.55  E-value=0.0019  Score=52.30  Aligned_cols=26  Identities=35%  Similarity=0.609  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|||||||++.|.|..
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          30 KGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999998764

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=96.54  E-value=0.0019  Score=51.89  Aligned_cols=24  Identities=29%  Similarity=0.621  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|+|||||++.|.|..
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999999764

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=96.54  E-value=0.0019  Score=52.18  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          25 QGEIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33468999999999999999999764

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.54  E-value=0.0018  Score=51.66  Aligned_cols=25  Identities=36%  Similarity=0.558  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          25 GEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCC
Confidence            3458999999999999999999764

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.54  E-value=0.0022  Score=51.35  Aligned_cols=26  Identities=31%  Similarity=0.484  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33468999999999999999999754

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=96.53  E-value=0.002  Score=50.97  Aligned_cols=26  Identities=19%  Similarity=0.326  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34458999999999999999999864

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.53  E-value=0.0022  Score=51.37  Aligned_cols=26  Identities=23%  Similarity=0.446  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999764

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>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=96.53  E-value=0.0023  Score=42.47  Aligned_cols=21  Identities=33%  Similarity=0.389  Sum_probs=18.8

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|++.|++++||||+.++|..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~   21 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAE   21 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999975

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.

>KOG4252|consensus

Probab=96.53  E-value=0.00064  Score=54.16  Aligned_cols=111  Identities=14%  Similarity=0.089  Sum_probs=67.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      -+.++|+|.-+.||||++.+..+..-.+     ..+-|+-..+..-.+                         .      
T Consensus        20 aiK~vivGng~VGKssmiqryCkgifTk-----dykktIgvdflerqi-------------------------~------   63 (246)
T KOG4252|consen   20 AIKFVIVGNGSVGKSSMIQRYCKGIFTK-----DYKKTIGVDFLERQI-------------------------K------   63 (246)
T ss_pred             hEEEEEECCCccchHHHHHHHhcccccc-----ccccccchhhhhHHH-------------------------H------
Confidence            3568999999999999999998433110     011122222210000                         0      


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-----------ccccccccchhhHHHHhHhccchh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-----------KTPEIVDCPGHDILMATMLNGAAV  165 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-----------~~~qt~e~l~~~il~~~~~nk~d~  165 (182)
                        ...+..++-+-||.|.+.|..-.-..-+.|.+.+||.+..+-.           ++..+.+     |+.++.-||||+
T Consensus        64 --v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~-----IPtV~vqNKIDl  136 (246)
T KOG4252|consen   64 --VLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETER-----IPTVFVQNKIDL  136 (246)
T ss_pred             --hhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhcc-----CCeEEeeccchh
Confidence              0011144566799999998875455557788889999988632           2223322     566677899998


Q ss_pred             hhHHH
Q psy1174         166 MDAAL  170 (182)
Q Consensus       166 ~~~~~  170 (182)
                      ++...
T Consensus       137 veds~  141 (246)
T KOG4252|consen  137 VEDSQ  141 (246)
T ss_pred             hHhhh
Confidence            75443

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.52  E-value=0.0019  Score=52.48  Aligned_cols=25  Identities=28%  Similarity=0.501  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        28 GEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCc
Confidence            3458999999999999999998754

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=96.52  E-value=0.002  Score=51.83  Aligned_cols=25  Identities=36%  Similarity=0.551  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          31 GETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=96.52  E-value=0.0019  Score=52.02  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=22.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          26 GEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3458999999999999999999865

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.51  E-value=0.0024  Score=50.33  Aligned_cols=25  Identities=24%  Similarity=0.139  Sum_probs=21.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.-.++++|+.|+|||||++++++
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhh
Confidence            3445689999999999999999863

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=96.51  E-value=0.0021  Score=51.26  Aligned_cols=26  Identities=23%  Similarity=0.447  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33458999999999999999999764

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=96.50  E-value=0.0021  Score=51.37  Aligned_cols=24  Identities=33%  Similarity=0.656  Sum_probs=21.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||++.|.|..
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCCC
Confidence            568999999999999999999764

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08118 topology modulation protein; Reviewed

Probab=96.50  E-value=0.0021  Score=49.98  Aligned_cols=20  Identities=30%  Similarity=0.318  Sum_probs=18.8

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|.|+|++|||||||...|.
T Consensus         3 rI~I~G~~GsGKSTlak~L~   22 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLG   22 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999997

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=96.49  E-value=0.0021  Score=52.15  Aligned_cols=25  Identities=24%  Similarity=0.490  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        35 Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         35 GEMMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458999999999999999999764

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.49  E-value=0.0022  Score=48.58  Aligned_cols=25  Identities=36%  Similarity=0.506  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCC
Confidence            3458999999999999999999864

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.49  E-value=0.0021  Score=52.26  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=21.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .-.++|+|+.|+|||||++.|.|.
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        26 GEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345899999999999999999986

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.49  E-value=0.0023  Score=49.37  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999864

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.49  E-value=0.002  Score=48.84  Aligned_cols=21  Identities=19%  Similarity=0.396  Sum_probs=19.5

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+|+|+.|+|||||+..|+.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~   22 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLIN   22 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999985

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=96.48  E-value=0.0022  Score=51.34  Aligned_cols=26  Identities=23%  Similarity=0.468  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          30 PGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            34468999999999999999999764

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=96.48  E-value=0.0021  Score=51.87  Aligned_cols=26  Identities=23%  Similarity=0.401  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|||||||++.|.|..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        25 KGEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999998754

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.48  E-value=0.0022  Score=52.09  Aligned_cols=25  Identities=28%  Similarity=0.577  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          27 GEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCc
Confidence            3458999999999999999998754

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.48  E-value=0.0022  Score=50.69  Aligned_cols=21  Identities=29%  Similarity=0.300  Sum_probs=19.3

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +|.|+|++||||||+...|..
T Consensus         2 riiilG~pGaGK~T~A~~La~   22 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAK   22 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999973

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=96.47  E-value=0.0022  Score=52.22  Aligned_cols=26  Identities=15%  Similarity=0.253  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         27 QGETLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            33458999999999999999999764

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.47  E-value=0.012  Score=52.56  Aligned_cols=23  Identities=17%  Similarity=0.341  Sum_probs=19.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+++++|+.|+||||++..|..
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~  243 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAA  243 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999888763

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=96.47  E-value=0.0023  Score=52.05  Aligned_cols=26  Identities=19%  Similarity=0.322  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34468999999999999999999754

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.47  E-value=0.0022  Score=51.66  Aligned_cols=24  Identities=17%  Similarity=0.304  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||+++|.|..
T Consensus        30 ~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          30 ETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCc
Confidence            458999999999999999999764

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.46  E-value=0.0022  Score=53.51  Aligned_cols=23  Identities=43%  Similarity=0.551  Sum_probs=20.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -++|+||.|+|||||+.+++|..
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLGll   54 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILGLL   54 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999999854

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=96.46  E-value=0.0022  Score=51.95  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=22.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQT   42 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~   42 (182)
                      .-.++|+|+.|+|||||++.|.|...
T Consensus        12 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770        12 GEVLALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            44589999999999999999998653

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.46  E-value=0.0023  Score=50.02  Aligned_cols=25  Identities=24%  Similarity=0.508  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999864

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.45  E-value=0.0019  Score=54.37  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=20.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...++++|+.|+||||++..|.+
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~   97 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAW   97 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            336799999999999999998864

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.45  E-value=0.0082  Score=57.17  Aligned_cols=23  Identities=17%  Similarity=0.307  Sum_probs=20.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|+++|+.|+||||++..|.+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~  207 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAA  207 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHh
Confidence            35689999999999999999975

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=96.44  E-value=0.0023  Score=52.08  Aligned_cols=25  Identities=24%  Similarity=0.530  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          28 GELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=96.44  E-value=0.0023  Score=52.53  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -.++|+|+.|+|||||++.|.|.
T Consensus        33 e~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         33 QVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            45899999999999999999975

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.44  E-value=0.0025  Score=49.44  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999854

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.44  E-value=0.0025  Score=50.13  Aligned_cols=22  Identities=18%  Similarity=0.250  Sum_probs=19.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++++|++|+|||||++.|.+.
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999754

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.44  E-value=0.0025  Score=50.59  Aligned_cols=26  Identities=27%  Similarity=0.362  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34468999999999999999998764

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.43  E-value=0.0029  Score=50.01  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         25 PSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            33468999999999999999999864

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=96.43  E-value=0.0024  Score=52.93  Aligned_cols=24  Identities=46%  Similarity=0.693  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      =.|++||+.|||||||++.|.|..
T Consensus        54 e~vGiiG~NGaGKSTLlkliaGi~   77 (249)
T COG1134          54 ERVGIIGHNGAGKSTLLKLIAGIY   77 (249)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCcc
Confidence            358999999999999999998764

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.43  E-value=0.0029  Score=50.50  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=22.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34568999999999999999999864

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=96.42  E-value=0.0025  Score=50.67  Aligned_cols=26  Identities=31%  Similarity=0.400  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          25 KGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            33458999999999999999999754

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.42  E-value=0.0025  Score=50.36  Aligned_cols=20  Identities=35%  Similarity=0.451  Sum_probs=18.6

Q ss_pred             eEEECCCCCChHHHHhHHhc
Q psy1174          20 PGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~g   39 (182)
                      |+|+|++|||||||+++|.+
T Consensus         2 igi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            79999999999999999974

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.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=96.42  E-value=0.0024  Score=52.62  Aligned_cols=26  Identities=31%  Similarity=0.423  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        29 ~Ge~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         29 PRSVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            34468999999999999999999854

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.42  E-value=0.0024  Score=52.77  Aligned_cols=25  Identities=24%  Similarity=0.385  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         27 GELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.42  E-value=0.0031  Score=44.89  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=20.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++.++|++|+||||++..|....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~   26 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL   26 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc
Confidence            568999999999999999998543

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.

>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=96.41  E-value=0.0026  Score=46.35  Aligned_cols=23  Identities=13%  Similarity=-0.005  Sum_probs=20.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +...++++|++|+|||||+.+|.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            33568999999999999999986

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

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=96.41  E-value=0.0025  Score=52.09  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|+|||||++.|.|..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         30 EVVAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998754

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=96.41  E-value=0.0031  Score=50.87  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=22.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        32 ~Ge~~~l~G~nGsGKSTLlk~l~G~~   57 (226)
T cd03234          32 SGQVMAILGSSGSGKTTLLDAISGRV   57 (226)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCcc
Confidence            44568999999999999999999764

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=96.40  E-value=0.0026  Score=51.88  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295          27 GEFLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458999999999999999998754

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=96.39  E-value=0.0025  Score=47.17  Aligned_cols=20  Identities=30%  Similarity=0.273  Sum_probs=18.3

Q ss_pred             eEEECCCCCChHHHHhHHhc
Q psy1174          20 PGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~g   39 (182)
                      |.++|++|||||||+..|..
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            68999999999999999973

...

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.39  E-value=0.0026  Score=50.58  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        34 G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          34 GEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccc
Confidence            3458999999999999999998754

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.39  E-value=0.0027  Score=49.25  Aligned_cols=26  Identities=31%  Similarity=0.374  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34468999999999999999999754

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.39  E-value=0.0027  Score=51.91  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||++.|.|..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         30 AIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999999754

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=96.38  E-value=0.0027  Score=51.56  Aligned_cols=25  Identities=40%  Similarity=0.655  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.38  E-value=0.0025  Score=50.76  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=22.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          33 GEMVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             CcEEEEECCCCCCHHHHHHHhcccC
Confidence            3468999999999999999999864

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10908 cell division protein FtsE; Provisional

Probab=96.38  E-value=0.0032  Score=50.61  Aligned_cols=26  Identities=35%  Similarity=0.487  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999764

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.38  E-value=0.0034  Score=48.56  Aligned_cols=26  Identities=23%  Similarity=0.302  Sum_probs=22.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44468999999999999999999864

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=96.37  E-value=0.0027  Score=52.00  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -.++|+|+.|+|||||++.|.|.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         32 EITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            35899999999999999999875

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=96.37  E-value=0.0027  Score=51.95  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        27 NQVTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3458999999999999999999764

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=96.37  E-value=0.0027  Score=52.94  Aligned_cols=26  Identities=35%  Similarity=0.402  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   57 (272)
T PRK15056         32 GGSIAALVGVNGSGKSTLFKALMGFV   57 (272)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            33468999999999999999999764

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.36  E-value=0.0028  Score=50.87  Aligned_cols=24  Identities=21%  Similarity=0.346  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||++.|.|..
T Consensus        38 e~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         38 EALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCC
Confidence            358999999999999999999864

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=96.36  E-value=0.0028  Score=51.10  Aligned_cols=26  Identities=27%  Similarity=0.428  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34468999999999999999999764

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.36  E-value=0.0032  Score=49.76  Aligned_cols=25  Identities=20%  Similarity=0.445  Sum_probs=22.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +.-.++++|+.|+|||||++.|.|.
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4456899999999999999999985

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.36  E-value=0.0032  Score=49.80  Aligned_cols=25  Identities=32%  Similarity=0.193  Sum_probs=21.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +...|+++|++|||||||++.|.+.
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3456899999999999999999864

>cd03274 ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=96.35  E-value=0.0046  Score=49.95  Aligned_cols=21  Identities=29%  Similarity=0.561  Sum_probs=19.1

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      -.++++|+.|||||||+++|.
T Consensus        26 ~i~~ivGpNGaGKSTll~~i~   46 (212)
T cd03274          26 SFSAIVGPNGSGKSNVIDSML   46 (212)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            357999999999999999987

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.35  E-value=0.0028  Score=51.89  Aligned_cols=24  Identities=25%  Similarity=0.481  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||+++|.|..
T Consensus        30 e~~~i~G~nGsGKSTLl~~i~Gl~   53 (250)
T PRK14262         30 QITAIIGPSGCGKTTLLRSINRMN   53 (250)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            458999999999999999999753

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=96.35  E-value=0.0029  Score=50.24  Aligned_cols=26  Identities=19%  Similarity=0.374  Sum_probs=22.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          25 AGEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34568999999999999999999764

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.35  E-value=0.0028  Score=53.32  Aligned_cols=26  Identities=27%  Similarity=0.521  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|||||||++.|.|..
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~L~Gl~   57 (286)
T PRK13646         32 QGKYYAIVGQTGSGKSTLIQNINALL   57 (286)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34458999999999999999998753

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.35  E-value=0.003  Score=49.19  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34468999999999999999999764

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.34  E-value=0.0027  Score=55.03  Aligned_cols=23  Identities=30%  Similarity=0.588  Sum_probs=20.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -++++||+|||||||++.|.|-.
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37999999999999999998654

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.34  E-value=0.0027  Score=52.37  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=21.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        38 Ge~~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         38 NEVTAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3458999999999999999998753

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.34  E-value=0.0029  Score=50.29  Aligned_cols=25  Identities=16%  Similarity=0.373  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||++.|.|..
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         27 GELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999999764

>cd01856 YlqF YlqF

Probab=96.34  E-value=0.002  Score=49.91  Aligned_cols=57  Identities=14%  Similarity=0.073  Sum_probs=39.5

Q ss_pred             CCCh-hHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh--HHHHhHhccchhhhH
Q psy1174         111 CPGH-DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD--ILMATMLNGAAVMDA  168 (182)
Q Consensus       111 tPGh-~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~--il~~~~~nk~d~~~~  168 (182)
                      -||| .+.+.++...+..||.+++|+|+.++ ......+++...  .....++||+|+.+.
T Consensus         2 ~~~~~~~~~~~~~~~i~~aD~il~v~D~~~~-~~~~~~~i~~~~~~k~~ilVlNK~Dl~~~   61 (171)
T cd01856           2 FPGHMAKALRQIKEKLKLVDLVIEVRDARIP-LSSRNPLLEKILGNKPRIIVLNKADLADP   61 (171)
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeccCc-cCcCChhhHhHhcCCCEEEEEehhhcCCh
Confidence            4888 46788889999999999999999876 433333322111  223466999998643

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.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.34  E-value=0.0029  Score=51.15  Aligned_cols=26  Identities=27%  Similarity=0.313  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (234)
T cd03251          27 AGETVALVGPSGSGKSTLVNLIPRFY   52 (234)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34458999999999999999998764

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.34  E-value=0.0029  Score=51.83  Aligned_cols=25  Identities=20%  Similarity=0.401  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         29 NTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3458999999999999999999864

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.34  E-value=0.0029  Score=51.79  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||+++|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (246)
T PRK14269         27 QNKITALIGASGCGKSTFLRCFNRMN   52 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34468999999999999999999753

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=96.34  E-value=0.0035  Score=49.95  Aligned_cols=26  Identities=27%  Similarity=0.477  Sum_probs=22.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        23 ~Ge~~~l~G~nGsGKSTLl~~l~gl~   48 (211)
T cd03298          23 QGEITAIVGPSGSGKSTLLNLIAGFE   48 (211)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999764

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.33  E-value=0.0029  Score=51.88  Aligned_cols=25  Identities=20%  Similarity=0.325  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        30 Ge~~~l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         30 NGVFALMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3458999999999999999999864

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.33  E-value=0.0034  Score=51.52  Aligned_cols=27  Identities=33%  Similarity=0.402  Sum_probs=22.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ++.-.++|+|+.|+|||||+++|+|..
T Consensus        25 ~pGev~ailGPNGAGKSTlLk~LsGel   51 (259)
T COG4559          25 RPGEVLAILGPNGAGKSTLLKALSGEL   51 (259)
T ss_pred             cCCcEEEEECCCCccHHHHHHHhhCcc
Confidence            344468999999999999999999764

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=96.33  E-value=0.0035  Score=50.68  Aligned_cols=25  Identities=24%  Similarity=0.377  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         33 GEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccc
Confidence            3458999999999999999999754

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.33  E-value=0.0029  Score=52.54  Aligned_cols=25  Identities=32%  Similarity=0.670  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        35 Ge~~~I~G~nGsGKSTLl~~i~Gl~   59 (269)
T PRK13648         35 GQWTSIVGHNGSGKSTIAKLMIGIE   59 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458999999999999999998764

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=96.33  E-value=0.0029  Score=51.39  Aligned_cols=26  Identities=27%  Similarity=0.280  Sum_probs=22.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||+++|.|..
T Consensus        28 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   53 (238)
T cd03249          28 PGKTVALVGSSGCGKSTVVSLLERFY   53 (238)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            44568999999999999999999764

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.33  E-value=0.0029  Score=51.93  Aligned_cols=25  Identities=28%  Similarity=0.456  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||+++|.|..
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         33 NSITALIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccc
Confidence            3458999999999999999999754

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=96.32  E-value=0.0035  Score=51.04  Aligned_cols=26  Identities=23%  Similarity=0.371  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        28 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         28 SGEIVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999764

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.32  E-value=0.0029  Score=53.13  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||+++|.|..
T Consensus        36 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         36 KNKVTCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            33458999999999999999998764

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.32  E-value=0.003  Score=52.10  Aligned_cols=24  Identities=33%  Similarity=0.538  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||++.|.|..
T Consensus        26 e~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          26 EVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999999764

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=96.31  E-value=0.012  Score=41.43  Aligned_cols=35  Identities=20%  Similarity=0.151  Sum_probs=26.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      +.+.+||+|+...-.  ....+..+|.+++++++...
T Consensus        40 ~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~~~~~   74 (104)
T cd02042          40 YDYIIIDTPPSLGLL--TRNALAAADLVLIPVQPSPL   74 (104)
T ss_pred             CCEEEEeCcCCCCHH--HHHHHHHCCEEEEeccCCHH
Confidence            458999999975433  33677889999999988753

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.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=96.31  E-value=0.0031  Score=51.74  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||++.|.|..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        30 EVLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999999764

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=96.31  E-value=0.0022  Score=63.74  Aligned_cols=18  Identities=28%  Similarity=0.322  Sum_probs=16.1

Q ss_pred             eEEECCCCCChHHHHhHH
Q psy1174          20 PGTIGHVAHGKSTVVKAI   37 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L   37 (182)
                      ..|||++|+||||++..-
T Consensus       114 YlviG~~gsGKtt~l~~s  131 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS  131 (1169)
T ss_pred             EEEECCCCCchhHHHHhC
Confidence            589999999999998865

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=96.31  E-value=0.003  Score=51.30  Aligned_cols=26  Identities=23%  Similarity=0.314  Sum_probs=22.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||+++|.|..
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (237)
T PRK11614         30 QGEIVTLIGANGAGKTTLLGTLCGDP   55 (237)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            33458999999999999999998754

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.31  E-value=0.003  Score=52.44  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -.++|+|+.|+|||||++.|.|.
T Consensus        48 e~~~i~G~nGsGKSTLl~~l~Gl   70 (268)
T PRK14248         48 AVTALIGPSGCGKSTFLRSINRM   70 (268)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            35899999999999999999874

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=96.30  E-value=0.0031  Score=51.16  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|+|||||++.|.|..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          28 GEVVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCc
Confidence            3458999999999999999999764

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.30  E-value=0.0031  Score=52.06  Aligned_cols=24  Identities=29%  Similarity=0.473  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        39 e~~~i~G~nGsGKSTLl~~i~Gl~   62 (258)
T PRK14268         39 SVTALIGPSGCGKSTFIRCLNRMN   62 (258)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999999854

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.30  E-value=0.0031  Score=51.66  Aligned_cols=24  Identities=25%  Similarity=0.443  Sum_probs=21.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        31 e~~~i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14251         31 ELTALIGPSGCGKSTFLRCLNRMN   54 (251)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhcc
Confidence            358999999999999999999864

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=96.30  E-value=0.0031  Score=52.34  Aligned_cols=24  Identities=25%  Similarity=0.641  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||++.|.|..
T Consensus        39 e~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         39 QFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999999764

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=96.29  E-value=0.0031  Score=51.60  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=21.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .-.++|+|+.|+|||||++.|.|.
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14240         29 NQVTALIGPSGCGKSTFLRTLNRM   52 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            345899999999999999999974

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.29  E-value=0.003  Score=51.37  Aligned_cols=20  Identities=40%  Similarity=0.562  Sum_probs=18.4

Q ss_pred             eEEECCCCCChHHHHhHHhc
Q psy1174          20 PGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~g   39 (182)
                      |+|.|++|||||||++.|.+
T Consensus         2 igI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHH
Confidence            79999999999999999874

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=96.29  E-value=0.0033  Score=50.58  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        33 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        33 AGECVALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999764

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=96.29  E-value=0.0033  Score=50.58  Aligned_cols=26  Identities=38%  Similarity=0.540  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|+|||||++.|.|..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (223)
T TIGR03740        25 KNSVYGLLGPNGAGKSTLLKMITGIL   50 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999999864

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=96.29  E-value=0.003  Score=52.34  Aligned_cols=24  Identities=42%  Similarity=0.592  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||+++|.|..
T Consensus        38 e~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T PRK10575         38 KVTGLIGHNGSGKSTLLKMLGRHQ   61 (265)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCC
Confidence            458999999999999999999764

>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=96.29  E-value=0.0051  Score=50.60  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=19.4

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++|+|+.|||||||+++|.+
T Consensus        26 ~~~~IvG~NGsGKStll~Ai~~   47 (251)
T cd03273          26 QFNAITGLNGSGKSNILDAICF   47 (251)
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999973

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	182
2pmd_A	415	The Structures Of Aif2gamma Subunit From The Archae		6e-25
2aho_A	414	Structure Of The Archaeal Initiation Factor Eif2 Al		7e-25
1s0u_A	408	Eif2gamma Apo Length = 408		3e-22
1kk3_A	410	Structure Of The Wild-Type Large Gamma Subunit Of I		7e-22
1kjz_A	410	Structure Of The Large Gamma Subunit Of Initiation		7e-22
3sjz_A	409	The Structure Of Aif2gamma Subunit Delta 41-45 From		9e-22
2d74_A	419	Crystal Structure Of Translation Initiation Factor		1e-21
1kk0_A	410	Structure Of The Large Gamma Subunit Of Initiation		1e-19
3pen_A	403	Structure Of Archaeal Initiation Factor Aif2gamma S		1e-19
3mmp_A	678	Structure Of The Qb Replicase, An Rna-Dependent Rna		7e-07
3u6b_A	394	Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028		1e-06
1dg1_G	394	Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Len		1e-06
1ob2_A	393	E. Coli Elongation Factor Ef-Tu Complexed With The		1e-06
1d8t_A	393	Crystal Structure Of Elongation Factor, Tu (Ef-Tu-M		1e-06
1efc_A	393	Intact Elongation Factor From E.Coli Length = 393		1e-06
1efu_A	385	Elongation Factor Complex Ef-TuEF-Ts From Escherich		1e-06
3agp_A	1289	Structure Of Viral Polymerase Form I Length = 1289		1e-06
1exm_A	405	Crystal Structure Of Thermus Thermophilus Elongatio		7e-06
1eft_A	405	The Crystal Structure Of Elongation Factor Ef-Tu Fr		7e-06
2c77_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		7e-06
1aip_A	405	Ef-Tu Ef-Ts Complex From Thermus Thermophilus Lengt		8e-06
2c78_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		8e-06
2y0u_Z	405	The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bou		8e-06
2wrn_Z	406	The Crystal Structure Of The 70s Ribosome Bound To		8e-06
2y0y_Z	405	The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bo		8e-06
4abr_Z	405	Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kir		8e-06
1ttt_A	405	Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Com		8e-06
1mj1_A	405	Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIB		1e-05
1efm_A	379	Structure Of The Gdp Domain Of Ef-Tu And Location O		2e-05
1d2e_A	397	Crystal Structure Of Mitochondrial Ef-Tu In Complex		1e-04
4ac9_A	482	Crystal Structure Of Translation Elongation Factor		4e-04
2hdn_B	335	Trypsin-Modified Elongation Factor Tu In Complex Wi		7e-04
1xb2_A	409	Crystal Structure Of Bos Taurus Mitochondrial Elong		8e-04

>pdb|2PMD|A Chain A, The Structures Of Aif2gamma Subunit From The Archaeon Sulfolobus Solfataricus In The Gdp-Bound Form. Length = 415

Iteration: 1
 Score =  110 bits (274), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 52/125 (41%), Positives = 77/125 (61%), Gaps = 9/125 (7%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+V+AI+G+ T +   EL+R +TIKLGYA   I  C  E C +P  Y++
Sbjct: 13  GVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVC--ESCKKPEAYVT 70
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S       C         + +R +SF+D PGH++LMATML+GAA+MD A+L++  +  
Sbjct: 71  EPS-------CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEP 123
Query: 141 AKTPE 145
              P+
Sbjct: 124 FPQPQ 128

>pdb|2AHO|A Chain A, Structure Of The Archaeal Initiation Factor Eif2 Alpha- Gamma Heterodimer From Sulfolobus Solfataricus Complexed With Gdpnp Length = 414

Iteration: 1
 Score =  109 bits (273), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 52/125 (41%), Positives = 77/125 (61%), Gaps = 9/125 (7%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+V+AI+G+ T +   EL+R +TIKLGYA   I  C  E C +P  Y++
Sbjct: 12  GVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVC--ESCKKPEAYVT 69
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S       C         + +R +SF+D PGH++LMATML+GAA+MD A+L++  +  
Sbjct: 70  EPS-------CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEP 122
Query: 141 AKTPE 145
              P+
Sbjct: 123 FPQPQ 127

>pdb|1S0U|A Chain A, Eif2gamma Apo Length = 408

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 51/127 (40%), Positives = 74/127 (58%), Gaps = 18/127 (14%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDN--EKCSRPACY 78
           G +GHV HGK+++ KA++GV T R   EL R I+I+LGYA+ +I KC       ++P C 
Sbjct: 12  GMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRC- 70
Query: 79  ISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD 138
                           +C    + +R VSFVD PGH+ LMATML+GA++MD A+L+I  +
Sbjct: 71  ---------------PNCLAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAILVIAAN 115
Query: 139 NAAKTPE 145
                P+
Sbjct: 116 EPCPQPQ 122

>pdb|1KK3|A Chain A, Structure Of The Wild-Type Large Gamma Subunit Of Initiation Factor Eif2 From Pyrococcus Abyssi Complexed With Gdp-Mg2+ Length = 410

Iteration: 1
 Score = 99.8 bits (247), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 53/129 (41%), Positives = 72/129 (55%), Gaps = 22/129 (17%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSR----PA 76
           G +GHV HGK+T+ KA++GV T     EL R ITIK+G+A+A+I +C N  C R    P 
Sbjct: 14  GMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPN--CGRYSTSPV 71
Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
           C                  C    + VR VSF+D PGH+ LM TML GA++MD A+L+I 
Sbjct: 72  C----------------PYCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIA 115
Query: 137 CDNAAKTPE 145
            +     P+
Sbjct: 116 ANEPCPRPQ 124

>pdb|1KJZ|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor Eif2 From Pyrococcus Abyssi-G235d Mutant Length = 410

Iteration: 1
 Score = 99.8 bits (247), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 53/129 (41%), Positives = 72/129 (55%), Gaps = 22/129 (17%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSR----PA 76
           G +GHV HGK+T+ KA++GV T     EL R ITIK+G+A+A+I +C N  C R    P 
Sbjct: 14  GMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPN--CGRYSTSPV 71
Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
           C                  C    + VR VSF+D PGH+ LM TML GA++MD A+L+I 
Sbjct: 72  C----------------PYCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIA 115
Query: 137 CDNAAKTPE 145
            +     P+
Sbjct: 116 ANEPCPRPQ 124

>pdb|3SJZ|A Chain A, The Structure Of Aif2gamma Subunit Delta 41-45 From Archaeon Sulfolobus Solfataricus Complexed With Gdp And Gdpnp Length = 409

Iteration: 1
 Score = 99.4 bits (246), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 50/125 (40%), Positives = 73/125 (58%), Gaps = 14/125 (11%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+V+AI+G+ T +   E     TIKLGYA   I  C  E C +P  Y++
Sbjct: 12  GVVGHVDHGKTTLVQAITGIWTSKHSEE-----TIKLGYAETNIGVC--ESCKKPEAYVT 64
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S       C         + +R +SF+D PGH++LMATML+GAA+MD A+L++  +  
Sbjct: 65  EPS-------CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEP 117
Query: 141 AKTPE 145
              P+
Sbjct: 118 FPQPQ 122

>pdb|2D74|A Chain A, Crystal Structure Of Translation Initiation Factor Aif2betagamma Heterodimer Length = 419

Iteration: 1
 Score = 99.0 bits (245), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 52/129 (40%), Positives = 72/129 (55%), Gaps = 22/129 (17%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSR----PA 76
           G +GHV HGK+T+ KA++GV T     EL R ITIK+G+A+A+I +C N  C R    P 
Sbjct: 15  GMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCSN--CGRYSTSPI 72
Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
           C                  C    + +R VSF+D PGH+ LM TML GA++MD A+L+I 
Sbjct: 73  C----------------PYCGHETEFIRRVSFIDSPGHEALMTTMLAGASLMDGAILVIA 116
Query: 137 CDNAAKTPE 145
            +     P+
Sbjct: 117 ANEPCPRPQ 125

>pdb|1KK0|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor Eif2 From Pyrococcus Abyssi Length = 410

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 50/129 (38%), Positives = 69/129 (53%), Gaps = 22/129 (17%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSR----PA 76
           G +GHV HGK+T+ KA++GV T     EL R ITIK+G+A+A+I +C N  C R    P 
Sbjct: 14  GXVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPN--CGRYSTSPV 71
Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
           C                  C    + VR VSF+D PGH+ L  T L GA++ D A+L+I 
Sbjct: 72  C----------------PYCGHETEFVRRVSFIDAPGHEALXTTXLAGASLXDGAILVIA 115
Query: 137 CDNAAKTPE 145
            +     P+
Sbjct: 116 ANEPCPRPQ 124

>pdb|3PEN|A Chain A, Structure Of Archaeal Initiation Factor Aif2gamma Subunit Delta 37-47 From Sulfolobus Solfataricus In The Gdp-Bound Form. Length = 403

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 47/125 (37%), Positives = 70/125 (56%), Gaps = 20/125 (16%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+V+AI+G+ T +           KLGYA   I  C  E C +P  Y++
Sbjct: 12  GVVGHVDHGKTTLVQAITGIWTSK-----------KLGYAETNIGVC--ESCKKPEAYVT 58
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S       C         + +R +SF+D PGH++LMATML+GAA+MD A+L++  +  
Sbjct: 59  EPS-------CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEP 111
Query: 141 AKTPE 145
              P+
Sbjct: 112 FPQPQ 116

>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna Polymerase Consisting Of Viral And Host Proteins Length = 678

Iteration: 1
 Score = 50.1 bits (118), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 35/116 (30%), Positives = 49/116 (42%), Gaps = 24/116 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +            G A     + DN    +      
Sbjct: 300 GTIGHVDHGKTTLTAAITTVLAKTY------------GGAARAFDQIDNAPEEKARGITI 347
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++ 
Sbjct: 348 NTSHVEYDTP------------TRHYAHVDCPGHADYVKNMITGAAQMDGAILVVA 391

>pdb|3U6B|A Chain A, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028 Length = 394

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 24/120 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +            G A     + DN    +      
Sbjct: 16  GTIGHVDHGKTTLTAAITTVLAKTY------------GGAARAFDQIDNAPEEKARGITI 63
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 64  NTSHVEYDTPT------------RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 111

>pdb|1DG1|G Chain G, Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Length = 394

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 24/120 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +            G A     + DN    +      
Sbjct: 16  GTIGHVDHGKTTLTAAITTVLAKTY------------GGAARAFDQIDNAPEEKARGITI 63
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 64  NTSHVEYDTPT------------RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 111

>pdb|1OB2|A Chain A, E. Coli Elongation Factor Ef-Tu Complexed With The Antibiotic Kirromycin, A Gtp Analog, And Phe-Trna Length = 393

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 24/120 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +            G A     + DN    +      
Sbjct: 15  GTIGHVDHGKTTLTAAITTVLAKTY------------GGAARAFDQIDNAPEEKARGITI 62
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 63  NTSHVEYDTPT------------RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 110

>pdb|1D8T|A Chain A, Crystal Structure Of Elongation Factor, Tu (Ef-Tu-Mggdp) Complexed With Ge2270a, A Thiazolyl Peptide Antibiotic Length = 393

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 24/120 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +            G A     + DN    +      
Sbjct: 15  GTIGHVDHGKTTLTAAITTVLAKTY------------GGAARAFDQIDNAPEEKARGITI 62
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 63  NTSHVEYDTPT------------RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 110

>pdb|1EFC|A Chain A, Intact Elongation Factor From E.Coli Length = 393

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 24/120 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +            G A     + DN    +      
Sbjct: 15  GTIGHVDHGKTTLTAAITTVLAKTY------------GGAARAFDQIDNAPEEKARGITI 62
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 63  NTSHVEYDTPT------------RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 110

>pdb|1EFU|A Chain A, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli Length = 385

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 24/120 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +            G A     + DN    +      
Sbjct: 7   GTIGHVDHGKTTLTAAITTVLAKTY------------GGAARAFDQIDNAPEEKARGITI 54
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 55  NTSHVEYDTPT------------RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 102

>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I Length = 1289

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/119 (29%), Positives = 50/119 (42%), Gaps = 24/119 (20%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V            +    G A     + DN    +      
Sbjct: 300 GTIGHVDHGKTTLTAAITTV------------LAKTYGGAARAFDQIDNAPEEKARGITI 347
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN 139
             S+ +   P             RH + VDCPGH   +  M+ GAA MD A+L++   +
Sbjct: 348 NTSHVEYDTPT------------RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATD 394

>pdb|1EXM|A Chain A, Crystal Structure Of Thermus Thermophilus Elongation Factor Tu (Ef-Tu) In Complex With The Gtp Analogue Gppnhp. Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTFVTAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|1EFT|A Chain A, The Crystal Structure Of Elongation Factor Ef-Tu From Thermus Aquaticus In The Gtp Conformation Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTFVTAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|2C77|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Ge2270 A Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVTAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|1AIP|A Chain A, Ef-Tu Ef-Ts Complex From Thermus Thermophilus Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVTAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|2C78|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Pulvomycin Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVAAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|2Y0U|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVAAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|2WRN|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu And Trna (Part 1 Of 4). Length = 406

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 16  GTIGHVDHGKTTLTAALTYVAAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 67
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 68  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 109

>pdb|2Y0Y|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVAAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|4ABR|Z Chain Z, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin With The 70s Ribosome Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVAAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|1TTT|A Chain A, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V           N+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVAAAE-----NPNVEVK-DYGD--IDKAPEERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDCPGH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|1MJ1|A Chain A, Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIBOSOMAL PROTEINS Into A 13 A Cryo-Em Map Of The Coli 70s Ribosome Length = 405

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 29/120 (24%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKC---SRPAC 77
           GTIGHV HGK+T+  A++ V          RN+ +K  Y +  I K   E+    +    
Sbjct: 15  GTIGHVDHGKTTLTAALTYVAAAE-----NRNVEVK-DYGD--IDKAREERARGITINTA 66
Query: 78  YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGC 137
           ++   + K                  RH S VDC GH   +  M+ GAA MD A+L++  
Sbjct: 67  HVEYETAK------------------RHYSHVDCRGHADYIKNMITGAAQMDGAILVVSA 108

>pdb|1EFM|A Chain A, Structure Of The Gdp Domain Of Ef-Tu And Location Of The Amino Acids Homologous To Ras Oncogene Proteins Length = 379

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 47/120 (39%), Gaps = 38/120 (31%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           GTIGHV HGK+T+  AI+ V    +     R ITI     N    + D            
Sbjct: 15  GTIGHVDHGKTTLTAAITTVLAKTYGGAA-RGITI-----NTSHVEYDTP---------- 58
Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
                                  RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 59  ----------------------TRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 96

>pdb|1D2E|A Chain A, Crystal Structure Of Mitochondrial Ef-Tu In Complex With Gdp Length = 397

Iteration: 1
 Score = 42.4 bits (98), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 50/121 (41%), Gaps = 26/121 (21%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK-CDNEKCSRPACYI 79
           GTIGHV HGK+T+  AI+              I  + G A  K Y+  DN    R     
Sbjct: 7   GTIGHVDHGKTTLTAAIT-------------KILAEGGGAKFKKYEEIDNAPEERARGIT 53
Query: 80  SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN 139
              ++ + S               RH +  DCPGH   +  M+ G A +D  +L++  ++
Sbjct: 54  INAAHVEYSTAA------------RHYAHTDCPGHADYVKNMITGTAPLDGCILVVAAND 101
Query: 140 A 140
Sbjct: 102 G 102

>pdb|4AC9|A Chain A, Crystal Structure Of Translation Elongation Factor Selb From Methanococcus Maripaludis In Complex With Gdp Length = 482

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 28/127 (22%), Positives = 55/127 (43%), Gaps = 41/127 (32%)
Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNEL----ERNITIKLGYANAKIYKCDNEKCSRPA 76
           G  GH+ HGK+T+ K ++ + +    ++L    +R ITI +G++    +K +N +     
Sbjct: 23  GIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSA---FKLENYR----- 74
Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
                                        ++ VD PGH  L+  +++ A ++D AL+++ 
Sbjct: 75  -----------------------------ITLVDAPGHADLIRAVVSAADIIDLALIVVD 105
Query: 137 CDNAAKT 143
                KT
Sbjct: 106 AKEGPKT 112

>pdb|2HDN|B Chain B, Trypsin-Modified Elongation Factor Tu In Complex With Tetracycline At 2.8 Angstrom Resolution Length = 335

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 16/37 (43%), Positives = 23/37 (62%)
Query: 104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
           RH + VDCPGH   +  M+ GAA MD A+L++   + 
Sbjct: 16  RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG 52

>pdb|1XB2|A Chain A, Crystal Structure Of Bos Taurus Mitochondrial Elongation Factor TuTS COMPLEX Length = 409

Iteration: 1
 Score = 39.7 bits (91), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 33/134 (24%), Positives = 54/134 (40%), Gaps = 26/134 (19%)
Query: 8   QSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYK- 66
           +  +V ++     GTIGHV HGK+T+  AI+              I  + G A  K Y+ 
Sbjct: 5   KKTYVRDKPHVNVGTIGHVDHGKTTLTAAIT-------------KILAEGGGAKFKKYEE 51
Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
            DN    R        ++ + S               RH +  DCPGH   +   + G A
Sbjct: 52  IDNAPEERARGITINAAHVEYS------------TAARHYAHTDCPGHADYVKNXITGTA 99
Query: 127 VMDAALLLIGCDNA 140
            +D  +L++  ++ 
Sbjct: 100 PLDGCILVVAANDG 113

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	182
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	6e-60
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	7e-59
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	4e-51
1wb1_A	482	Translation elongation factor SELB; selenocysteine	3e-19
1wb1_A	482	Translation elongation factor SELB; selenocysteine	5e-06
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	2e-14
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	5e-05
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	5e-11
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	1e-10
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	2e-10

>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* Length = 410

 Score =  190 bits (486), Expect = 6e-60
 Identities = 50/115 (43%), Positives = 67/115 (58%), Gaps = 14/115 (12%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+ KA++GV T     EL R ITIK+G+A+A+I +C       P C   
Sbjct: 14  GMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRC-------PNCGRY 66

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
             S            C    + VR VSF+D PGH+ LM TML GA++MD A+L+I
Sbjct: 67  STSPVCP-------YCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVI 114

>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 Length = 408

 Score =  188 bits (479), Expect = 7e-59
 Identities = 49/115 (42%), Positives = 70/115 (60%), Gaps = 14/115 (12%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+++ KA++GV T R   EL R I+I+LGYA+ +I KC      +   Y +
Sbjct: 12  GMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCP-----QCGTYTT 66

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
                +         C    + +R VSFVD PGH+ LMATML+GA++MD A+L+I
Sbjct: 67  KPRCPN---------CLAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAILVI 112

>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* Length = 403

 Score =  167 bits (426), Expect = 4e-51
 Identities = 45/115 (39%), Positives = 68/115 (59%), Gaps = 20/115 (17%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+V+AI+G+ T +           KLGYA   I  C++  C +P  Y++
Sbjct: 12  GVVGHVDHGKTTLVQAITGIWTSK-----------KLGYAETNIGVCES--CKKPEAYVT 58

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
             S       C         + +R +SF+D PGH++LMATML+GAA+MD A+L++
Sbjct: 59  EPS-------CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVV 106

>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* Length = 482

 Score = 83.2 bits (206), Expect = 3e-19
 Identities = 25/122 (20%), Positives = 50/122 (40%), Gaps = 41/122 (33%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTV----RFKNELERNITIKLGYANAKIYKCDNEKCSRPA 76
           G  GH+ HGK+T+ K ++ + +     +     +R ITI +G++    +K +N       
Sbjct: 23  GIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSA---FKLEN------- 72

Query: 77  CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
                                        ++ VD PGH  L+  +++ A ++D AL+++ 
Sbjct: 73  ---------------------------YRITLVDAPGHADLIRAVVSAADIIDLALIVVD 105

Query: 137 CD 138
             
Sbjct: 106 AK 107

>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* Length = 482

 Score = 44.7 bits (106), Expect = 5e-06
 Identities = 10/28 (35%), Positives = 20/28 (71%)

Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
           +VD PGH  L+  +++ A ++D AL+++
Sbjct: 77  LVDAPGHADLIRAVVSAADIIDLALIVV 104

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei} Length = 370

 Score = 69.1 bits (170), Expect = 2e-14
 Identities = 17/130 (13%), Positives = 35/130 (26%), Gaps = 49/130 (37%)

Query: 21  GTIGHVAHGKSTVVKAISGV------------QTVRFKNELERNITIKLGYANAKIYKCD 68
           G+  H  H  S +V   S +            +T    N  ++  +  +   N      +
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMANVAIIGTEKSGRTSLAANLGKKGTSSDITMYN---NDKE 58

Query: 69  NEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVM 128
                                              R++ FVD   +   + +++    + 
Sbjct: 59  G----------------------------------RNMVFVDAHSYPKTLKSLITALNIS 84

Query: 129 DAALLLIGCD 138
           D A+L I   
Sbjct: 85  DIAVLCIPPQ 94

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei} Length = 370

 Score = 41.8 bits (99), Expect = 5e-05
 Identities = 6/28 (21%), Positives = 13/28 (46%)

Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
            VD   +   + +++    + D A+L I
Sbjct: 64  FVDAHSYPKTLKSLITALNISDIAVLCI 91

>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 Length = 1289

 Score = 59.6 bits (144), Expect = 5e-11
 Identities = 35/127 (27%), Positives = 45/127 (35%), Gaps = 52/127 (40%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKI-YK 66
           GTIGHV HGK+T+  AI+ V    +               E  R ITI      + + Y 
Sbjct: 300 GTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITI----NTSHVEYD 355

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
                                                RH + VDCPGH   +  M+ GAA
Sbjct: 356 TPT----------------------------------RHYAHVDCPGHADYVKNMITGAA 381

Query: 127 VMDAALL 133
            MD A+L
Sbjct: 382 QMDGAIL 388

>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* Length = 397

 Score = 58.0 bits (141), Expect = 1e-10
 Identities = 31/127 (24%), Positives = 41/127 (32%), Gaps = 52/127 (40%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKI-YK 66
           GTIGHV HGK+T+  AI+ +                    E  R ITI      A + Y 
Sbjct: 7   GTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITI----NAAHVEYS 62

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
                                                RH +  DCPGH   +  M+ G A
Sbjct: 63  TAA----------------------------------RHYAHTDCPGHADYVKNMITGTA 88

Query: 127 VMDAALL 133
            +D  +L
Sbjct: 89  PLDGCIL 95

>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* ... Length = 405

 Score = 57.2 bits (139), Expect = 2e-10
 Identities = 37/128 (28%), Positives = 46/128 (35%), Gaps = 53/128 (41%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN--------------ELERNITIKLGYANAKI-Y 65
           GTIGHV HGK+T+  A++ V      N              E  R ITI      A + Y
Sbjct: 15  GTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITI----NTAHVEY 70

Query: 66  KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGA 125
           +                                     RH S VDCPGH   +  M+ GA
Sbjct: 71  ETAK----------------------------------RHYSHVDCPGHADYIKNMITGA 96

Query: 126 AVMDAALL 133
           A MD A+L
Sbjct: 97  AQMDGAIL 104

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	182
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.92
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.91
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.9
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.85
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.84
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.84
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.83
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.79
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.79
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.79
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.78
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.77
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.77
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.76
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.75
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.74
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.74
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.73
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.73
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.72
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.72
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.72
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.71
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.71
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.71
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.68
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.65
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.64
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.64
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.64
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.56
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.47
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.45
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.44
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.41
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.39
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.39
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.39
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.38
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.38
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.37
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.37
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.37
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.37
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.37
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.36
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.36
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.36
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.36
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.36
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.36
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.35
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.35
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.35
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.35
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.35
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.35
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.34
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.34
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.34
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.34
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.34
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.33
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.33
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.33
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.33
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.33
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.32
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.32
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.32
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.32
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.32
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.32
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.32
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.32
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.31
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.31
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.31
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.31
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.31
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.3
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.3
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.3
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.3
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.3
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.3
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.29
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.29
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.29
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.29
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.29
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.29
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.29
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.29
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.29
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.28
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.28
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.28
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.27
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.27
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.27
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.27
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.27
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.26
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.26
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.26
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.26
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.26
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.26
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.26
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.25
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.25
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.25
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.25
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.25
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.25
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.25
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.25
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.25
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.25
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.25
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.24
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.24
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.24
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.24
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.24
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.23
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.23
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.23
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.22
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.22
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.21
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.21
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.84
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.2
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.2
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.2
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.19
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.19
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.19
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.18
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.18
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.18
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.17
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.17
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.16
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.16
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.15
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.15
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.14
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.13
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.12
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.12
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.12
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.11
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.1
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.1
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.08
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.07
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.05
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.05
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.04
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	98.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	98.95
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.95
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	98.95
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.93
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.93
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	98.92
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.91
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.9
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	98.9
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.88
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.87
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	98.86
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	98.84
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.84
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.84
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.84
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.83
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	98.78
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.78
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.76
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.75
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.75
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	98.74
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.58
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.58
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	98.56
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.53
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.51
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.47
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	98.44
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.39
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	98.33
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.31
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.25
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.2
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.13
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	98.12
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.04
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.03
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.02
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.98
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.98
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	97.97
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.88
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.88
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.52
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.43
2xxa_A	433	Signal recognition particle protein; protein trans	97.42
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.37
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.33
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.31
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.29
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.27
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.18
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.14
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.12
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.11
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.06
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.06
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.04
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.04
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.03
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.02
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.98
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.96
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.91
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.88
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.83
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.82
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.81
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.81
1g6h_A	257	High-affinity branched-chain amino acid transport	96.8
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.8
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.79
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.79
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.79
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.78
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.76
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.75
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.75
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.72
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.71
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.71
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.71
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.71
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.7
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.7
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.69
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.68
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.68
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.68
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.68
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.67
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.65
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.65
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.64
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.63
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.62
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.61
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.58
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.57
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.57
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.56
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.56
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.53
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.52
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.52
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.49
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.48
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.47
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.45
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.45
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.42
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.42
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.4
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.39
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.39
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.39
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.37
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.37
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.36
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.36
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.35
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.35
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.34
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.33
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.33
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.32
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.31
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.3
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.29
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.29
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.28
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.28
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.27
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.27
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.27
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.27
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.26
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.26
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.25
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.25
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.23
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.22
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.22
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.2
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.2
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.18
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.14
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.13
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.13
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.12
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.11
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.11
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.1
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.07
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.06
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.06
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.05
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.02
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.02
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.01
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.01
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.99
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.99
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.98
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.98
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.94
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.94
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	95.93
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.92
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.9
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.9
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.87
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.85
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.85
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.84
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.84
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.83
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.82
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.79
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.78
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.78
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.77
1via_A	175	Shikimate kinase; structural genomics, transferase	95.75
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.74
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.74
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.74
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.72
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.69
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.69
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.67
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	95.61
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.58
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.56
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.54
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.54
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.53
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.52
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.51
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.5
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	95.49
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.48
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.48
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.47
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.46
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.45
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.45
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.43
2og2_A	359	Putative signal recognition particle receptor; nuc	95.42
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.41
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.4
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.39
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.39
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.38
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	95.38
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.37
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.36
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.33
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.32
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.31
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.31
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.29
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.23
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.23
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.22
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.19
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.18
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.18
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.17
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.17
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.17
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.17
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.16
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.14
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.13
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.1
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.09
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.06
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.04
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.02
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.02
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.01
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.0
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.92
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.92
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	94.92
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	94.92
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.9
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.89
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.87
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.81
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	94.79
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	94.76
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.59
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.58
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	94.58
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.55
3bos_A	242	Putative DNA replication factor; P-loop containing	94.54
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	94.45
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.44
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.44
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.36
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	94.3
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.29
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	94.28
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.28
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.2
2chg_A	226	Replication factor C small subunit; DNA-binding pr	94.19
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.17
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.13
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.12
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.06
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	94.01
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	93.99
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	93.96
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	93.91
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.88
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	93.86
1e69_A	322	Chromosome segregation SMC protein; structural mai	93.84
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	93.84
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.81
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	93.81
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	93.75
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	93.68
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	93.67
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.66
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	93.58
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	93.58
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	93.57
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	93.52
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	93.48
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.47
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.4
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.39
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	93.38
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	93.33
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	93.26
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	93.26
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	93.21
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	93.21
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.18
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.17
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	93.16
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.16
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	93.11
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.08
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	93.08
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	93.06
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	92.99
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	92.97
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	92.95
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.94
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	92.91
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	92.75
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	92.71
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	92.69
3co5_A	143	Putative two-component system transcriptional RES	92.62
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.53
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	92.39
3auy_A	371	DNA double-strand break repair RAD50 ATPase; DNA r	92.39
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	92.28
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	92.28
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	92.28
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	92.11
2qgz_A	308	Helicase loader, putative primosome component; str	92.01
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	92.0
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	92.0
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	91.99
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	91.99
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	91.86
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	91.85
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	91.82
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	91.8
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	91.76

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.92  E-value=1.9e-26  Score=211.37  Aligned_cols=114  Identities=25%  Similarity=0.302  Sum_probs=97.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      ++|||+|+||+|||||||+++|+   |.            ..|..+.|++||+|++.....                   
T Consensus         1 kIRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~-------------------   61 (638)
T 3j25_A            1 KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITS-------------------   61 (638)
T ss_dssp             CCCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCC-------------------
T ss_pred             CeeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEE-------------------
Confidence            47999999999999999999997   32            245778999999999886633                   


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHH
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILM  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~  156 (182)
                                +.|.+        ++||+||||||.||..++.++++.+|+||+||||.+| ++.||+.+++++    +..
T Consensus        62 ----------~~~~~--------~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~G-V~~qT~~v~~~a~~~~lp~  122 (638)
T 3j25_A           62 ----------FQWEN--------TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDG-VQAQTRILFHALRKMGIPT  122 (638)
T ss_dssp             ----------CBCSS--------CBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCT-TCSHHHHHHHHHHHHTCSC
T ss_pred             ----------EEECC--------EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCC-CcHHHHHHHHHHHHcCCCe
Confidence                      23444        8899999999999999999999999999999999999 999999988765    334


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      ..++||+|...
T Consensus       123 i~~INKmDr~~  133 (638)
T 3j25_A          123 IFFINKIDQNG  133 (638)
T ss_dssp             EECCEECCSSS
T ss_pred             EEEEecccccc
Confidence            58899999653

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.91  E-value=2.6e-26  Score=207.33  Aligned_cols=114  Identities=19%  Similarity=0.211  Sum_probs=85.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHh---c----------------CCccchhhHhhhceeeeeccccceeeecCCCCCCCCc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS---G----------------VQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPA   76 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~---g----------------~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~   76 (182)
                      +.|||+||||+|||||||+++|+   |                ...|+++.|++||+|+....+.+              
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~--------------   95 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQF--------------   95 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEE--------------
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEE--------------
Confidence            57999999999999999999996   2                13467789999999998776432              


Q ss_pred             ccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh---
Q psy1174          77 CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD---  153 (182)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~---  153 (182)
                                     .|.+        ++|||||||||.||..++.++++.+|+||+||||.+| ++.||+.+++++   
T Consensus        96 ---------------~~~~--------~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~G-V~~qT~~v~~~a~~~  151 (548)
T 3vqt_A           96 ---------------PYRD--------RVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKG-VEAQTRKLMDVCRMR  151 (548)
T ss_dssp             ---------------EETT--------EEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTB-SCHHHHHHHHHHHHT
T ss_pred             ---------------EECC--------EEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCC-cccccHHHHHHHHHh
Confidence                           2344        8999999999999999999999999999999999999 999999877654   


Q ss_pred             -HHHHhHhccchhhh
Q psy1174         154 -ILMATMLNGAAVMD  167 (182)
Q Consensus       154 -il~~~~~nk~d~~~  167 (182)
                       +....|+||+|...
T Consensus       152 ~lp~i~fINK~Dr~~  166 (548)
T 3vqt_A          152 ATPVMTFVNKMDREA  166 (548)
T ss_dssp             TCCEEEEEECTTSCC
T ss_pred             CCceEEEEecccchh
Confidence             44558899999764

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.90  E-value=2.1e-25  Score=206.41  Aligned_cols=121  Identities=22%  Similarity=0.216  Sum_probs=84.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      .+|||+|+||+|||||||+++|+   |.            ..|..+.|++||+|++.....+.. +..            
T Consensus        12 ~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~-~~~------------   78 (709)
T 4fn5_A           12 RYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFW-KGS------------   78 (709)
T ss_dssp             GEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEE-CCT------------
T ss_pred             HCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEe-ccC------------
Confidence            46899999999999999999997   21            245778899999999887754332 110            


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHH
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILM  156 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~  156 (182)
                                      +. ....+.||+||||||.||..++.++++.+|+||+||||.+| ++.||+.+++++    +..
T Consensus        79 ----------------~~-~~~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveG-V~~qT~~v~~~a~~~~lp~  140 (709)
T 4fn5_A           79 ----------------RG-QYDNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSG-VEPQSETVWRQANKYGVPR  140 (709)
T ss_dssp             ----------------TS-CSCCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTC-SCHHHHHHHHHHHHHTCCE
T ss_pred             ----------------cC-CCCCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCC-CchhHHHHHHHHHHcCCCe
Confidence                            00 01128999999999999999999999999999999999999 999999988776    445


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      ..++||+|...
T Consensus       141 i~~iNKiDr~~  151 (709)
T 4fn5_A          141 IVYVNKMDRQG  151 (709)
T ss_dssp             EEEEECSSSTT
T ss_pred             EEEEccccccC
Confidence            58899999653

>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=99.85  E-value=1.8e-21  Score=169.29  Aligned_cols=141  Identities=38%  Similarity=0.634  Sum_probs=102.3

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL   92 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (182)
                      .+++.++|+++||+|||||||+++|+|...+++++|.++|+|++.++....++.+++  +.   +|......       +
T Consensus         6 ~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~--~~---~y~~~~~~-------~   73 (410)
T 1kk1_A            6 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPN--CG---RYSTSPVC-------P   73 (410)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTT--TC---CEESSSBC-------T
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccc--cc---cccccccc-------c
Confidence            456778999999999999999999999888888899999999998887666544321  00   12211110       0


Q ss_pred             CCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcc-cccccccchhhHH-----HHhHhccchhh
Q psy1174          93 RSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAK-TPEIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus        93 ~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~-~~qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                      .  +...+...++++|+|||||.+|..++.+++..+|++||||||.+| . +.||++++..+..     ...++||+|+.
T Consensus        74 ~--~g~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g-~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~  150 (410)
T 1kk1_A           74 Y--CGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEP-CPRPQTREHLMALQIIGQKNIIIAQNKIELV  150 (410)
T ss_dssp             T--TCCBCEEEEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSC-SSCHHHHHHHHHHHHHTCCCEEEEEECGGGS
T ss_pred             c--cCcccccccEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCC-CCChhHHHHHHHHHHcCCCcEEEEEECccCC
Confidence            0  000111237899999999999999999999999999999999998 6 8899996543221     12458999987


Q ss_pred             hH
Q psy1174         167 DA  168 (182)
Q Consensus       167 ~~  168 (182)
                      +.
T Consensus       151 ~~  152 (410)
T 1kk1_A          151 DK  152 (410)
T ss_dssp             CH
T ss_pred             CH
Confidence            63

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.84  E-value=1.8e-21  Score=171.16  Aligned_cols=117  Identities=22%  Similarity=0.287  Sum_probs=91.5

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcC----------------------------CccchhhHhhhceeeeeccccce
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGV----------------------------QTVRFKNELERNITIKLGYANAK   63 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~----------------------------~~~~~~~e~~~g~t~~~~~~~~~   63 (182)
                      ..++++++|+++||+|+|||||+++|++.                            ..+..+.|+++|+|++..+..+.
T Consensus        12 ~~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~   91 (439)
T 3j2k_7           12 APKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFE   91 (439)
T ss_pred             CCCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEe
Confidence            34577899999999999999999999632                            12455677888888887664321


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccc
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKT  143 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~  143 (182)
                                                           ...++++|+|||||.+|..++..+++.+|++||||||.+| ..
T Consensus        92 -------------------------------------~~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g-~~  133 (439)
T 3j2k_7           92 -------------------------------------TEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKG-EF  133 (439)
T ss_pred             -------------------------------------cCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCC-cc
Confidence                                                 1127899999999999999999999999999999999998 54


Q ss_pred             -------ccccccchhhHH-----HHhHhccchhh
Q psy1174         144 -------PEIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus       144 -------~qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                             +||++++..+..     ....+||+|+.
T Consensus       134 e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~  168 (439)
T 3j2k_7          134 ETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDP  168 (439)
T ss_pred             ccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCc
Confidence                   799995543211     23568999974

>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=99.84  E-value=3.9e-21  Score=167.14  Aligned_cols=142  Identities=37%  Similarity=0.664  Sum_probs=97.1

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      +.+++.++|+++||+|||||||+++|++...+++..|.++|+|+..++....++.+++  ++   +|......       
T Consensus         3 ~~r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~--~~---~y~~~~~~-------   70 (408)
T 1s0u_A            3 LGSQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQ--CG---TYTTKPRC-------   70 (408)
T ss_dssp             --CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTT--TC---CEESSSBC-------
T ss_pred             cccCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccc--cc---cccccccc-------
Confidence            3456789999999999999999999999888888899999999998887666544321  11   23221110       


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----HHhHhccchhh
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                      +.  +...+...+.++|+|||||.+|..++.++++.+|++|||||+.+|....||++++.....     ...++||+|+.
T Consensus        71 ~~--~g~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~  148 (408)
T 1s0u_A           71 PN--CLAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLV  148 (408)
T ss_dssp             TT--SCCBCEEEEEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSS
T ss_pred             cc--cCcccccccEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCC
Confidence            00  000111237899999999999999999999999999999999998238899995543211     22558999986


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       149 ~  149 (408)
T 1s0u_A          149 D  149 (408)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.83  E-value=1.5e-21  Score=173.57  Aligned_cols=123  Identities=20%  Similarity=0.356  Sum_probs=85.1

Q ss_pred             CccccccCCCcceEEECCCCCChHHHHhHHhcCC----ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174           8 QSNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQ----TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus         8 ~~~~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~----~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      +.+....++.++|+++||+|+|||||+++|++..    .++...|.++|+|++..+..+..                   
T Consensus        10 ~~~~~~~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-------------------   70 (482)
T 1wb1_A           10 EGRPHMDFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-------------------   70 (482)
T ss_dssp             ---CCCCCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-------------------
T ss_pred             CcchhhcCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEE-------------------
Confidence            3344555677899999999999999999999876    56678889999999887754222                   


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                                        +.++++++|||||.+|..++..+++.+|++|||||+.+| +++||++++..+    +....+
T Consensus        71 ------------------~~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g-~~~qt~e~l~~~~~~~ip~Ivv  131 (482)
T 1wb1_A           71 ------------------ENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEG-PKTQTGEHMLILDHFNIPIIVV  131 (482)
T ss_dssp             ------------------TTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTC-SCHHHHHHHHHHHHTTCCBCEE
T ss_pred             ------------------CCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCC-ccHHHHHHHHHHHHcCCCEEEE
Confidence                              127899999999999999999999999999999999999 999999955322    112356


Q ss_pred             hccchhhhH
Q psy1174         160 LNGAAVMDA  168 (182)
Q Consensus       160 ~nk~d~~~~  168 (182)
                      +||+|+.+.
T Consensus       132 iNK~Dl~~~  140 (482)
T 1wb1_A          132 ITKSDNAGT  140 (482)
T ss_dssp             EECTTSSCH
T ss_pred             EECCCcccc
Confidence            999998753

>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=99.79  E-value=2.8e-20  Score=161.37  Aligned_cols=114  Identities=28%  Similarity=0.435  Sum_probs=88.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC-------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ-------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGR   82 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~-------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (182)
                      +..+|+++||+|+|||||+++|++..             .+....|+++|+|++..+..+.                   
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~-------------------   62 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYS-------------------   62 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEE-------------------
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEec-------------------
Confidence            56789999999999999999998531             1233455678888876542110                   


Q ss_pred             CCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----H-HH
Q psy1174          83 SNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----L-MA  157 (182)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l-~~  157 (182)
                                        ...++++|+|||||.+|..++..+++.+|++|+|||+.+| ...|+++++..+.    . ..
T Consensus        63 ------------------~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g-~~~qt~e~l~~~~~~~vp~ii  123 (397)
T 1d2e_A           63 ------------------TAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDG-PMPQTREHLLLARQIGVEHVV  123 (397)
T ss_dssp             ------------------CSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTC-SCHHHHHHHHHHHHTTCCCEE
T ss_pred             ------------------cCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCC-CCHHHHHHHHHHHHcCCCeEE
Confidence                              1127899999999999999999999999999999999999 8999999664321    1 13


Q ss_pred             hHhccchhhh
Q psy1174         158 TMLNGAAVMD  167 (182)
Q Consensus       158 ~~~nk~d~~~  167 (182)
                      .++||+|+.+
T Consensus       124 vviNK~Dl~~  133 (397)
T 1d2e_A          124 VYVNKADAVQ  133 (397)
T ss_dssp             EEEECGGGCS
T ss_pred             EEEECcccCC
Confidence            5699999873

>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=99.79  E-value=1.6e-20  Score=162.97  Aligned_cols=117  Identities=32%  Similarity=0.468  Sum_probs=90.5

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcC--------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGV--------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPAC   77 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~--------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~   77 (182)
                      ..+++.++|+++||+|+|||||+++|++.              ..+....|.++|+|++.....+.              
T Consensus         6 ~~~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~--------------   71 (405)
T 2c78_A            6 VRTKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYE--------------   71 (405)
T ss_dssp             ---CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEE--------------
T ss_pred             cCCCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEec--------------
Confidence            44567789999999999999999999852              12345677889998876442110              


Q ss_pred             cccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH---
Q psy1174          78 YISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI---  154 (182)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i---  154 (182)
                                             ...++++++|||||.+|..++..+++.+|++|+|||+.+| ...|+++++..+.   
T Consensus        72 -----------------------~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g-~~~qt~~~l~~~~~~~  127 (405)
T 2c78_A           72 -----------------------TAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADG-PMPQTREHILLARQVG  127 (405)
T ss_dssp             -----------------------CSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTC-CCHHHHHHHHHHHHTT
T ss_pred             -----------------------cCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCC-CcHHHHHHHHHHHHcC
Confidence                                   0127899999999999999999999999999999999999 8889998664332   


Q ss_pred             -H-HHhHhccchhh
Q psy1174         155 -L-MATMLNGAAVM  166 (182)
Q Consensus       155 -l-~~~~~nk~d~~  166 (182)
                       . ...++||+|+.
T Consensus       128 ip~iivviNK~Dl~  141 (405)
T 2c78_A          128 VPYIVVFMNKVDMV  141 (405)
T ss_dssp             CCCEEEEEECGGGC
T ss_pred             CCEEEEEEECcccc
Confidence             1 23569999987

>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=99.79  E-value=1.7e-20  Score=166.21  Aligned_cols=116  Identities=24%  Similarity=0.257  Sum_probs=67.1

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhc---CC-------------------------ccchhhHhhhceeeeecccccee
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISG---VQ-------------------------TVRFKNELERNITIKLGYANAKI   64 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g---~~-------------------------~~~~~~e~~~g~t~~~~~~~~~~   64 (182)
                      ..++.++|+++||+|||||||+++|+.   ..                         .+..+.|+++|+|++..+..+. 
T Consensus        39 ~~k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~-  117 (467)
T 1r5b_A           39 YGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFE-  117 (467)
T ss_dssp             SCCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEE-
T ss_pred             cCCCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEe-
Confidence            356678999999999999999999973   21                         1233445667777776553211 


Q ss_pred             eecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcc--
Q psy1174          65 YKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAK--  142 (182)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~--  142 (182)
                                                          ...++++|+|||||.+|..++.++++.+|++|||||+.+| .  
T Consensus       118 ------------------------------------~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g-~~e  160 (467)
T 1r5b_A          118 ------------------------------------TEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRG-EFE  160 (467)
T ss_dssp             ------------------------------------CSSEEEEECCCCC-----------TTSCSEEEEEEECSTT-HHH
T ss_pred             ------------------------------------cCCeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcC-ccc
Confidence                                                1127899999999999999999999999999999999998 5  


Q ss_pred             -----cccccccchhhHH-----HHhHhccchhh
Q psy1174         143 -----TPEIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus       143 -----~~qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                           ..||++++..+..     .+.++||+|+.
T Consensus       161 ~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~  194 (467)
T 1r5b_A          161 AGFERGGQTREHAVLARTQGINHLVVVINKMDEP  194 (467)
T ss_dssp             HTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTST
T ss_pred             cccCCCCcHHHHHHHHHHcCCCEEEEEEECccCC
Confidence                 4799985543321     23569999984

>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=99.78  E-value=6.5e-20  Score=162.04  Aligned_cols=115  Identities=23%  Similarity=0.292  Sum_probs=88.2

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC---C-------------------------ccchhhHhhhceeeeeccccceee
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV---Q-------------------------TVRFKNELERNITIKLGYANAKIY   65 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~---~-------------------------~~~~~~e~~~g~t~~~~~~~~~~~   65 (182)
                      +++.++|+++||+|+|||||+++|++.   .                         .++.+.|+++|+|++..+..+.  
T Consensus         4 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~--   81 (458)
T 1f60_A            4 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFE--   81 (458)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEE--
T ss_pred             CCceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEe--
Confidence            456789999999999999999999842   1                         1344567778888877653211  


Q ss_pred             ecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccc-
Q psy1174          66 KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTP-  144 (182)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~-  144 (182)
                                                         ...++++|+|||||.+|..++..+++.+|++|||||+.+| ... 
T Consensus        82 -----------------------------------~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g-~~~~  125 (458)
T 1f60_A           82 -----------------------------------TPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVG-EFEA  125 (458)
T ss_dssp             -----------------------------------CSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHH-HHHH
T ss_pred             -----------------------------------cCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcC-cccc
Confidence                                               1127899999999999999999999999999999999987 544 


Q ss_pred             ------cccccchhhHH-----HHhHhccchhh
Q psy1174         145 ------EIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus       145 ------qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                            |+++++..+..     .+.++||+|+.
T Consensus       126 sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl~  158 (458)
T 1f60_A          126 GISKDGQTREHALLAFTLGVRQLIVAVNKMDSV  158 (458)
T ss_dssp             HTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGG
T ss_pred             ccCcchhHHHHHHHHHHcCCCeEEEEEEccccc
Confidence                  88885432211     23469999987

>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=99.77  E-value=1.9e-19  Score=157.78  Aligned_cols=115  Identities=23%  Similarity=0.263  Sum_probs=83.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC------------------------------ccchhhHhhhceeeeecccccee
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ------------------------------TVRFKNELERNITIKLGYANAKI   64 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~------------------------------~~~~~~e~~~g~t~~~~~~~~~~   64 (182)
                      ++.++|+++||+|+|||||+++|++..                              .+..+.|+++|+|++..+..+. 
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~-  100 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS-  100 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE-
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee-
Confidence            455799999999999999999997321                              1223456667777776543211 


Q ss_pred             eecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccc
Q psy1174          65 YKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTP  144 (182)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~  144 (182)
                                                          ...++++++|||||.+|..++..+++.+|++|||||+.+| ...
T Consensus       101 ------------------------------------~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g-~~~  143 (434)
T 1zun_B          101 ------------------------------------TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYG-VQT  143 (434)
T ss_dssp             ------------------------------------CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTC-SCH
T ss_pred             ------------------------------------cCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCC-CcH
Confidence                                                1127899999999999999999999999999999999999 888


Q ss_pred             cccccchhhHH-----HHhHhccchhhh
Q psy1174         145 EIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       145 qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      |+++++..+..     ...++||+|+.+
T Consensus       144 qt~~~l~~~~~~~~~~iIvviNK~Dl~~  171 (434)
T 1zun_B          144 QTRRHSYIASLLGIKHIVVAINKMDLNG  171 (434)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEECTTTTT
T ss_pred             HHHHHHHHHHHcCCCeEEEEEEcCcCCc
Confidence            99885533211     234599999875

>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=99.77  E-value=1.7e-19  Score=158.25  Aligned_cols=119  Identities=26%  Similarity=0.336  Sum_probs=80.4

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcC---C-------------------------ccchhhHhhhceeeeeccccce
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGV---Q-------------------------TVRFKNELERNITIKLGYANAK   63 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~---~-------------------------~~~~~~e~~~g~t~~~~~~~~~   63 (182)
                      |++++.++|+++||+|+|||||+++|++.   .                         .++.+.|+++|+|++..+..+.
T Consensus         1 ~~~k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~   80 (435)
T 1jny_A            1 MSQKPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFE   80 (435)
T ss_dssp             ---CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEE
T ss_pred             CCCCCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEe
Confidence            34567889999999999999999999842   2                         2334556678888877653211


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc--
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA--  141 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~--  141 (182)
                                                   +        ..++++++|||||.+|..++..+++.+|++|+|||+.+|.  
T Consensus        81 -----------------------------~--------~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe  123 (435)
T 1jny_A           81 -----------------------------T--------KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYE  123 (435)
T ss_dssp             -----------------------------C--------SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHH
T ss_pred             -----------------------------c--------CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccc
Confidence                                         1        1278999999999999999999999999999999999862  


Q ss_pred             ----ccccccccchhhH-----HHHhHhccchhhh
Q psy1174         142 ----KTPEIVDCPGHDI-----LMATMLNGAAVMD  167 (182)
Q Consensus       142 ----~~~qt~e~l~~~i-----l~~~~~nk~d~~~  167 (182)
                          +..|+++++..+.     ....++||+|+.+
T Consensus       124 ~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~  158 (435)
T 1jny_A          124 AGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  158 (435)
T ss_dssp             HHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             cccccchHHHHHHHHHHHcCCCeEEEEEEcccCCC
Confidence                5668888553221     1235699999875

>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=99.76  E-value=1.4e-19  Score=164.89  Aligned_cols=119  Identities=23%  Similarity=0.235  Sum_probs=79.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc---CC---------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG---VQ---------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g---~~---------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      .++||+++||+|||||||+++|+.   ..         .+....|+++|+|+......+.. ...               
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~-~~~---------------   68 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFY-KAK---------------   68 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEE-ECT---------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEE-EcC---------------
Confidence            468999999999999999999973   21         23456788899998766543221 100               


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                                      ....+.++|+|||||.+|..++.++++.+|++|+|||+.+| ++.||.+++..+    +....+
T Consensus        69 ----------------dg~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~g-v~~qt~~~~~~a~~~~ipiIvv  131 (600)
T 2ywe_A           69 ----------------DGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQG-IEAQTVANFWKAVEQDLVIIPV  131 (600)
T ss_dssp             ----------------TSCEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTB-CCHHHHHHHHHHHHTTCEEEEE
T ss_pred             ----------------CCCeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCC-ccHHHHHHHHHHHHCCCCEEEE
Confidence                            01126899999999999999999999999999999999999 899998855332    223467


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|+.+
T Consensus       132 iNKiDl~~  139 (600)
T 2ywe_A          132 INKIDLPS  139 (600)
T ss_dssp             EECTTSTT
T ss_pred             EeccCccc
Confidence            99999864

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.75  E-value=2e-19  Score=163.80  Aligned_cols=119  Identities=23%  Similarity=0.223  Sum_probs=75.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc---CC---------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG---VQ---------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRS   83 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g---~~---------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (182)
                      .++||+|+||+|||||||+++|+.   ..         .+....|+++|+|+......+.. ...               
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~-~~~---------------   66 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDY-KAS---------------   66 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEE-ECT---------------
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEE-ecC---------------
Confidence            468999999999999999999973   21         24556788899998766543221 100               


Q ss_pred             CCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          84 NKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                                      ....+.++++|||||.+|..++.++++.+|++|+|||+.+| +..||.+++..+    +....+
T Consensus        67 ----------------~g~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~g-v~~qt~~~~~~~~~~~ipiIvV  129 (599)
T 3cb4_D           67 ----------------DGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQG-VEAQTLANCYTAMEMDLEVVPV  129 (599)
T ss_dssp             ----------------TSCEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTC-CCTHHHHHHHHHHHTTCEEEEE
T ss_pred             ----------------CCCeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCC-CCHHHHHHHHHHHHCCCCEEEe
Confidence                            00127899999999999999999999999999999999999 899998855332    223467


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|+.+
T Consensus       130 iNKiDl~~  137 (599)
T 3cb4_D          130 LNKIDLPA  137 (599)
T ss_dssp             EECTTSTT
T ss_pred             eeccCccc
Confidence            99999865

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.74  E-value=7e-19  Score=151.80  Aligned_cols=99  Identities=14%  Similarity=0.205  Sum_probs=80.2

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      +|+++||+|+|||||+++|+           ++|+|++..+..+.                             +.    
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~-----------~~giTi~~~~~~~~-----------------------------~~----   58 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG-----------KKGTSSDITMYNND-----------------------------KE----   58 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS-----------EEEEESSSEEEEEC-----------------------------SS----
T ss_pred             EEEEECCCCCCHHHHHHHHH-----------hCCEEEEeeEEEEe-----------------------------cC----
Confidence            89999999999999999997           47888877663211                             11    


Q ss_pred             cccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----HH-HhHhc-cchhhhH
Q psy1174          99 RFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----LM-ATMLN-GAAVMDA  168 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~-~~~~n-k~d~~~~  168 (182)
                          .++++++|||||.+|..++..+++.+|++||||| .+| ...||++++..+.    .. ..++| |+|+ +.
T Consensus        59 ----~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g-~~~qt~e~~~~~~~~~i~~~ivvvNNK~Dl-~~  127 (370)
T 2elf_A           59 ----GRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQG-LDAHTGECIIALDLLGFKHGIIALTRSDST-HM  127 (370)
T ss_dssp             ----SSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTC-CCHHHHHHHHHHHHTTCCEEEEEECCGGGS-CH
T ss_pred             ----CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCC-CcHHHHHHHHHHHHcCCCeEEEEEEeccCC-CH
Confidence                2789999999999999999999999999999999 888 9999999553321    11 45688 9998 53

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.74  E-value=8.2e-20  Score=166.15  Aligned_cols=117  Identities=20%  Similarity=0.192  Sum_probs=65.3

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC----------------------------CccchhhHhhhceeeeeccccceee
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV----------------------------QTVRFKNELERNITIKLGYANAKIY   65 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~----------------------------~~~~~~~e~~~g~t~~~~~~~~~~~   65 (182)
                      .+++++|+++||+|+|||||+++|++.                            ..+..+.|+++|+|++..+..+.  
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~--  251 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFE--  251 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEE--
Confidence            456789999999999999999999621                            12344566677888777653211  


Q ss_pred             ecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----
Q psy1174          66 KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----  141 (182)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----  141 (182)
                                                         ...++++|+|||||.+|..++..+++.+|++|||||+.+|.    
T Consensus       252 -----------------------------------~~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~g  296 (592)
T 3mca_A          252 -----------------------------------SDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERG  296 (592)
T ss_dssp             ------------------------------------------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTT
T ss_pred             -----------------------------------eCCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccc
Confidence                                               11278999999999999999999999999999999999861    


Q ss_pred             c--cccccccchhhHH-----HHhHhccchhhh
Q psy1174         142 K--TPEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       142 ~--~~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      +  ..||++++..+..     .+.++||+|+.+
T Consensus       297 i~~~~qt~e~l~~~~~lgip~iIvviNKiDl~~  329 (592)
T 3mca_A          297 FLENGQTREHAYLLRALGISEIVVSVNKLDLMS  329 (592)
T ss_dssp             SCSCSSHHHHHHHHHHSSCCCEEEEEECGGGGT
T ss_pred             cccchHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence            4  8899995533211     224689999874

>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=99.73  E-value=1.5e-18  Score=166.82  Aligned_cols=116  Identities=34%  Similarity=0.487  Sum_probs=81.5

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      +++.++|+++||+|+|||||+++|++.             ..++.+.|.++|+|++.....+.                 
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~-----------------  355 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYD-----------------  355 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEE-----------------
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEc-----------------
Confidence            466789999999999999999999853             12344567778888776442110                 


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----  155 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----  155 (182)
                                          ...++++|+|||||.+|..++..+++.+|++|||||+.+| ...||++++..+..     
T Consensus       356 --------------------~~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdG-v~~QTrEhL~ll~~lgIP~  414 (1289)
T 3avx_A          356 --------------------TPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDG-PMPQTREHILLGRQVGVPY  414 (1289)
T ss_dssp             --------------------CSSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTC-SCTTHHHHHHHHHHHTCSC
T ss_pred             --------------------CCCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCcc-CcHHHHHHHHHHHHcCCCe
Confidence                                1127899999999999999999999999999999999999 89999996644321     


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      .+.++||+|+.+
T Consensus       415 IIVVINKiDLv~  426 (1289)
T 3avx_A          415 IIVFLNKCDMVD  426 (1289)
T ss_dssp             EEEEEECCTTCC
T ss_pred             EEEEEeeccccc
Confidence            135699999874

>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=99.73  E-value=2.6e-18  Score=152.50  Aligned_cols=117  Identities=21%  Similarity=0.231  Sum_probs=80.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcC---C-------------------------ccchhhHhhhceeeeeccccceee
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGV---Q-------------------------TVRFKNELERNITIKLGYANAKIY   65 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~---~-------------------------~~~~~~e~~~g~t~~~~~~~~~~~   65 (182)
                      .++.++|+++|++|+|||||+++|++.   .                         .+....|.++|+|++..+..+.  
T Consensus        30 ~k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~--  107 (483)
T 3p26_A           30 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFS--  107 (483)
T ss_dssp             SCCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEE--
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEe--
Confidence            467789999999999999999999743   1                         1223344555665555442211  


Q ss_pred             ecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----
Q psy1174          66 KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----  141 (182)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----  141 (182)
                                                         ...++++|+|||||.+|..++..+++.+|++|||||+.+|.    
T Consensus       108 -----------------------------------~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~  152 (483)
T 3p26_A          108 -----------------------------------THRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESG  152 (483)
T ss_dssp             -----------------------------------CSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------
T ss_pred             -----------------------------------cCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccc
Confidence                                               12378999999999999999999999999999999999873    


Q ss_pred             --ccccccccchhhHH-----HHhHhccchhhh
Q psy1174         142 --KTPEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       142 --~~~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                        +..|+++++..+..     .+..+||+|+.+
T Consensus       153 ~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          153 FDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  185 (483)
T ss_dssp             CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGT
T ss_pred             cchhhhHHHHHHHHHHcCCCcEEEEEECcCccc
Confidence              34678874432211     234599999875

>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=99.72  E-value=2.7e-17  Score=142.72  Aligned_cols=137  Identities=34%  Similarity=0.641  Sum_probs=86.5

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL   92 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (182)
                      .+++..+|+++|++|+|||||+++|++...++           ..++....++.+.  .+..+..+....       .+.
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~-----------~~~~~~~~~~~~~--~~~~~~~~~~~~-------~~~   63 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSK-----------KLGYAETNIGVCE--SCKKPEAYVTEP-------SCK   63 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCS-----------SSEEEEEEEEECT--TSCTTTTEESSS-------CCG
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCccccc-----------ccCccccceeecc--ccccccceeccc-------ccc
Confidence            35677899999999999999999999754321           1111111111111  111111111110       000


Q ss_pred             CCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----HHhHhccchhhh
Q psy1174          93 RSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus        93 ~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      ...........++++++|||||.+|..++..++..+|++|+|||+.+|....|+++++..+..     ...++||+|+.+
T Consensus        64 ~~~~~~~~~~~~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~  143 (403)
T 3sjy_A           64 SCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVS  143 (403)
T ss_dssp             GGTCCSCCEEEEEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSC
T ss_pred             cccccccccccceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccc
Confidence            001111122337899999999999999999999999999999999998338899985533221     234689999876


Q ss_pred             HH
Q psy1174         168 AA  169 (182)
Q Consensus       168 ~~  169 (182)
                      ..
T Consensus       144 ~~  145 (403)
T 3sjy_A          144 KE  145 (403)
T ss_dssp             HH
T ss_pred             hH
Confidence            43

>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=99.72  E-value=2.7e-18  Score=158.88  Aligned_cols=122  Identities=20%  Similarity=0.205  Sum_probs=92.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc---C------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG---V------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g---~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ...+||+|+||+|||||||+++|+.   .            ..++.+.|.++|+|+......+..   +           
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~---~-----------   73 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFW---S-----------   73 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEE---C-----------
Confidence            3568999999999999999999962   1            134566788899998876643221   0           


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                     +.. .....+.++|||||||.+|..++.++++.+|++|+|||+.+| +..|+++++.++    +.
T Consensus        74 ---------------~~~-~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~g-v~~qt~~~~~~~~~~~ip  136 (704)
T 2rdo_7           74 ---------------GMA-KQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGG-VQPQSETVWRQANKYKVP  136 (704)
T ss_pred             ---------------Ccc-ccCCceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCC-CcHHHHHHHHHHHHcCCC
Confidence                           000 001127899999999999999999999999999999999999 888998866543    23


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|...
T Consensus       137 ~ilviNKiD~~~  148 (704)
T 2rdo_7          137 RIAFVNKMDRMG  148 (704)
T ss_pred             EEEEEeCCCccc
Confidence            446799999764

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.72  E-value=1.1e-18  Score=157.01  Aligned_cols=114  Identities=17%  Similarity=0.218  Sum_probs=89.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc-------------------CCccchhhHhhhceeeeeccccceeeecCCCCCCCCc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG-------------------VQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPA   76 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g-------------------~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~   76 (182)
                      ..++|+|+||+|+|||||+++|+.                   ...++...|.++|+|+......+.             
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~-------------   78 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFP-------------   78 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEE-------------
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEE-------------
Confidence            467999999999999999999961                   122345667788888766553221             


Q ss_pred             ccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh---
Q psy1174          77 CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD---  153 (182)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~---  153 (182)
                                      +.+        ++++++|||||.+|...+.++++.+|++|+|||+..| +..++.+++..+   
T Consensus        79 ----------------~~~--------~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g-~~~~t~~~~~~~~~~  133 (528)
T 3tr5_A           79 ----------------YKD--------YLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKG-VEPRTIKLMEVCRLR  133 (528)
T ss_dssp             ----------------ETT--------EEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTC-SCHHHHHHHHHHHTT
T ss_pred             ----------------eCC--------EEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCC-CCHHHHHHHHHHHHc
Confidence                            122        7899999999999999999999999999999999999 888888755432   


Q ss_pred             -HHHHhHhccchhhh
Q psy1174         154 -ILMATMLNGAAVMD  167 (182)
Q Consensus       154 -il~~~~~nk~d~~~  167 (182)
                       +....++||+|...
T Consensus       134 ~iPiivviNK~Dl~~  148 (528)
T 3tr5_A          134 HTPIMTFINKMDRDT  148 (528)
T ss_dssp             TCCEEEEEECTTSCC
T ss_pred             CCCEEEEEeCCCCcc
Confidence             33457899999763

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.71  E-value=5e-18  Score=154.92  Aligned_cols=117  Identities=21%  Similarity=0.231  Sum_probs=87.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCC----------------------------ccchhhHhhhceeeeeccccceee
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQ----------------------------TVRFKNELERNITIKLGYANAKIY   65 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~----------------------------~~~~~~e~~~g~t~~~~~~~~~~~   65 (182)
                      .++.++|+++|++|+|||||+++|++..                            .+....|+++|+|++..+..+.  
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~--  241 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFS--  241 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEE--
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEe--
Confidence            4677899999999999999999998431                            1133456677888776553211  


Q ss_pred             ecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----
Q psy1174          66 KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----  141 (182)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----  141 (182)
                                                         ...++++|+|||||.+|...+..+++.+|++|+|||+..|.    
T Consensus       242 -----------------------------------~~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~  286 (611)
T 3izq_1          242 -----------------------------------THRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESG  286 (611)
T ss_dssp             -----------------------------------CSSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTT
T ss_pred             -----------------------------------cCCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCccccc
Confidence                                               11278999999999999999999999999999999999752    


Q ss_pred             --ccccccccchhhHH-----HHhHhccchhhh
Q psy1174         142 --KTPEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       142 --~~~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                        +..|+++++..+..     .+..+||+|+.+
T Consensus       287 ~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~  319 (611)
T 3izq_1          287 FDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  319 (611)
T ss_dssp             CCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTT
T ss_pred             chhhhHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence              35688884432211     234599999875

>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=99.71  E-value=1.7e-18  Score=155.74  Aligned_cols=115  Identities=17%  Similarity=0.147  Sum_probs=80.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC---C----------------ccchhhHhhhceeeeeccccceeeecCCCCCCCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV---Q----------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRP   75 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~---~----------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~   75 (182)
                      ...++|+++||+|+|||||+++|+..   .                .++.+.|.++|+|+......+             
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~-------------   77 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQF-------------   77 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEE-------------
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEE-------------
Confidence            34689999999999999999999842   1                122344556666655433211             


Q ss_pred             cccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh--
Q psy1174          76 ACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD--  153 (182)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~--  153 (182)
                                      .+.        .++++++|||||.+|...+.+++..+|++|+|||+.+| +..|+++++..+  
T Consensus        78 ----------------~~~--------~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g-~~~~t~~~~~~~~~  132 (529)
T 2h5e_A           78 ----------------PYH--------DCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKG-VEDRTRKLMEVTRL  132 (529)
T ss_dssp             ----------------EET--------TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTC-SCHHHHHHHHHHTT
T ss_pred             ----------------EEC--------CeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCcc-chHHHHHHHHHHHH
Confidence                            112        27899999999999999999999999999999999999 888888755432  


Q ss_pred             --HHHHhHhccchhhh
Q psy1174         154 --ILMATMLNGAAVMD  167 (182)
Q Consensus       154 --il~~~~~nk~d~~~  167 (182)
                        +....++||+|...
T Consensus       133 ~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A          133 RDTPILTFMNKLDRDI  148 (529)
T ss_dssp             TTCCEEEEEECTTSCC
T ss_pred             cCCCEEEEEcCcCCcc
Confidence              33457899999764

>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=99.71  E-value=4.7e-19  Score=158.41  Aligned_cols=111  Identities=21%  Similarity=0.365  Sum_probs=85.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+++||+|||||||+++|.+..   ......+|+|++.+...                             ..+. 
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~---v~~~e~~GIT~~i~~~~-----------------------------v~~~-   49 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTK---VASGEAGGITQHIGAYH-----------------------------VETE-   49 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHH---HSBTTBCCCCCCSSCCC-----------------------------CCTT-
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCC---CccccCCCeeEeEEEEE-----------------------------EEEC-
Confidence            45789999999999999999998521   11122356666654421                             1111 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----HHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----LMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~~~~~nk~d~~~  167 (182)
                             +++++|+|||||.+|...+.+++..+|++|||||+.+| +.+||.+++.++.    ....++||+|+.+
T Consensus        50 -------~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g-~~~qT~e~l~~~~~~~vPiIVviNKiDl~~  117 (501)
T 1zo1_I           50 -------NGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDG-VMPQTIEAIQHAKAAQVPVVVAVNKIDKPE  117 (501)
T ss_dssp             -------SSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTB-SCTTTHHHHHHHHHTTCCEEEEEECSSSST
T ss_pred             -------CEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccC-ccHHHHHHHHHHHhcCceEEEEEEeccccc
Confidence                   26799999999999999999999999999999999999 9999999776542    2346799999864

>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=99.68  E-value=3.9e-18  Score=160.56  Aligned_cols=130  Identities=22%  Similarity=0.181  Sum_probs=84.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC-------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~-------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      ...+||+|+||+|||||||+++|+..             ..+....|.++|+|+......+.. ..+....      .. 
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~-~~~~~~~------~~-   88 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYS-EMSDEDV------KE-   88 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEE-ECCHHHH------HH-
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEe-ccccccc------cc-
Confidence            45689999999999999999999832             223456677888888765433221 1000000      00 


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHH
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMA  157 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~  157 (182)
                       .    ...        .....+.++++|||||.+|...+.++++.+|++|+|||+.+| +..|+..++.++    +...
T Consensus        89 -i----~~~--------~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g-~~~qt~~~~~~~~~~~~p~i  154 (842)
T 1n0u_A           89 -I----KQK--------TDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEG-VCVQTETVLRQALGERIKPV  154 (842)
T ss_dssp             -C----SSC--------CCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTB-SCHHHHHHHHHHHHTTCEEE
T ss_pred             -c----ccc--------ccCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCC-CCHHHHHHHHHHHHcCCCeE
Confidence             0    000        001137899999999999999999999999999999999999 888888765543    2234


Q ss_pred             hHhccchhh
Q psy1174         158 TMLNGAAVM  166 (182)
Q Consensus       158 ~~~nk~d~~  166 (182)
                      .++||+|..
T Consensus       155 lviNK~D~~  163 (842)
T 1n0u_A          155 VVINKVDRA  163 (842)
T ss_dssp             EEEECHHHH
T ss_pred             EEEECCCcc
Confidence            679999976

>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=99.65  E-value=2.7e-17  Score=151.92  Aligned_cols=115  Identities=19%  Similarity=0.252  Sum_probs=79.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ...++|+|+||+|||||||+++|+   +.            ..++...|+++++|+......+.                
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~----------------   73 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCF----------------   73 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEE----------------
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEE----------------
Confidence            346899999999999999999998   22            12344556677777765543211                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                   +.+        +.++++|||||.+|...+.+++..+|++|+|||+.+| ...++.+.+.++    +.
T Consensus        74 -------------~~~--------~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g-~~~~t~~~~~~~~~~~~p  131 (691)
T 1dar_A           74 -------------WKD--------HRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQG-VEPQSETVWRQAEKYKVP  131 (691)
T ss_dssp             -------------ETT--------EEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTC-SCHHHHHHHHHHHHTTCC
T ss_pred             -------------ECC--------eEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCC-cchhhHHHHHHHHHcCCC
Confidence                         112        7899999999999999999999999999999999999 888887755443    22


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|...
T Consensus       132 ~ivviNKiD~~~  143 (691)
T 1dar_A          132 RIAFANKMDKTG  143 (691)
T ss_dssp             EEEEEECTTSTT
T ss_pred             EEEEEECCCccc
Confidence            346799999764

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.64  E-value=5.3e-18  Score=152.72  Aligned_cols=111  Identities=23%  Similarity=0.369  Sum_probs=84.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .+.|+++||+|||||||+++|.+..   +.....+++|.++.+..+..                                
T Consensus         4 ~pkV~IvG~~~vGKTSLl~~L~~~~---~~~~~~~giT~~i~~~~v~~--------------------------------   48 (537)
T 3izy_P            4 SPVVTIMGHVDHGKTTLLDKLRKTQ---VAAMEAGGITQHIGAFLVSL--------------------------------   48 (537)
T ss_dssp             CCBCEEEESTTTTHHHHHHHHHHHH---HHHSSSCCBCCCTTSCCBCS--------------------------------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---cccccCCceeEEEeEEEEEe--------------------------------
Confidence            4679999999999999999998532   12223355666554422110                                


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----HHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----LMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l~~~~~nk~d~~~  167 (182)
                          ....+++|+|||||.+|...+.+++..+|++|||||+.+| ..+|+.+++.++.    ....++||+|..+
T Consensus        49 ----~~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg-~~~qt~e~l~~~~~~~vPiIVViNKiDl~~  118 (537)
T 3izy_P           49 ----PSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDG-VMKQTVESIQHAKDAHVPIVLAINKCDKAE  118 (537)
T ss_dssp             ----SCSSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSC-CCHHHHHHHHHHHTTTCCEEECCBSGGGTT
T ss_pred             ----CCCCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCC-ccHHHHHHHHHHHHcCCcEEEEEecccccc
Confidence                0115799999999999999999999999999999999999 9999999776642    2346799999864

>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=99.64  E-value=1.1e-17  Score=152.37  Aligned_cols=129  Identities=19%  Similarity=0.251  Sum_probs=81.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+++||+|||||||+++|++....   ....+|+|...+...+.....          ....+..        ..+
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~---~~e~ggiT~~ig~~~~~~~~~----------~~~~~~~--------~~~   62 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVA---SREAGGITQHIGATEIPMDVI----------EGICGDF--------LKK   62 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHS---CC----CCCBTTEEEEEHHHH----------HHHSCGG--------GGG
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCc---cccCCceecccCeEEEeechh----------hhhcccc--------ccc
Confidence            4568999999999999999999853211   111135555443321100000          0000000        000


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                      . ........++|+|||||.+|...+.++++.+|++|+|+|+.+| +++||.+++.++    ++...++||+|...
T Consensus        63 ~-~v~~~~~~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~G-v~~qT~e~l~~l~~~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           63 F-SIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEG-FKPQTQEALNILRMYRTPFVVAANKIDRIH  136 (594)
T ss_dssp             C-GGGGTCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTC-CCHHHHHHHHHHHHTTCCEEEEEECGGGST
T ss_pred             c-ccccccCCEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCC-ccHhHHHHHHHHHHcCCeEEEEeccccccc
Confidence            0 0000113699999999999999888899999999999999999 999999977654    23357799999863

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.64  E-value=2.7e-17  Score=151.92  Aligned_cols=115  Identities=21%  Similarity=0.305  Sum_probs=79.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cCC------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GVQ------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~~------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ...++|+|+||+|+|||||+++|+   +..            .+....|+++++|+......+.                
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~----------------   71 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAA----------------   71 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEE----------------
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEE----------------
Confidence            456899999999999999999998   321            2334455667777665443211                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                   +.+        .+++++|||||.+|...+.+++..+|++|+|||+.+| +..++.+.+..+    +.
T Consensus        72 -------------~~~--------~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g-~~~~~~~~~~~~~~~~~p  129 (693)
T 2xex_A           72 -------------WEG--------HRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSG-VEPQTETVWRQATTYGVP  129 (693)
T ss_dssp             -------------ETT--------EEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTB-SCHHHHHHHHHHHHTTCC
T ss_pred             -------------ECC--------eeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCC-CcHHHHHHHHHHHHcCCC
Confidence                         112        7899999999999999999999999999999999998 888887755432    22


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|...
T Consensus       130 ~ilviNK~Dl~~  141 (693)
T 2xex_A          130 RIVFVNKMDKLG  141 (693)
T ss_dssp             EEEEEECTTSTT
T ss_pred             EEEEEECCCccc
Confidence            346799999764

>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=99.56  E-value=2e-15  Score=138.85  Aligned_cols=114  Identities=16%  Similarity=0.116  Sum_probs=85.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC---------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ---------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~---------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      .+.++|+|+||+|+|||||+++|++..               .+....|.++++++......+.                
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~----------------   70 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLL----------------   70 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEE----------------
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEe----------------
Confidence            346789999999999999999998211               2234455666766544332110                


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH----H
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI----L  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i----l  155 (182)
                                   +.        ...++++|||||.+|...+.++++.+|++++|+|+.+| +..|+++++.++.    .
T Consensus        71 -------------~~--------~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g-~~~qt~~~~~~~~~~~ip  128 (665)
T 2dy1_A           71 -------------FR--------GHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAG-VQVGTERAWTVAERLGLP  128 (665)
T ss_dssp             -------------ET--------TEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTC-SCHHHHHHHHHHHHTTCC
T ss_pred             -------------eC--------CEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcc-cchhHHHHHHHHHHccCC
Confidence                         11        27899999999999999999999999999999999999 8999988665432    2


Q ss_pred             HHhHhccchhh
Q psy1174         156 MATMLNGAAVM  166 (182)
Q Consensus       156 ~~~~~nk~d~~  166 (182)
                      ...++||+|..
T Consensus       129 ~ilv~NKiD~~  139 (665)
T 2dy1_A          129 RMVVVTKLDKG  139 (665)
T ss_dssp             EEEEEECGGGC
T ss_pred             EEEEecCCchh
Confidence            34669999974

>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=99.47  E-value=1.9e-14  Score=120.69  Aligned_cols=111  Identities=21%  Similarity=0.232  Sum_probs=71.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ...|+++|++|+|||||+++|++......  ....+.|.....   .+                                
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~~~~iv--s~~~~tTr~~i~---~i--------------------------------   49 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGVKVAPI--SPRPQTTRKRLR---GI--------------------------------   49 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSCCSCC--CSSSCCCCSCEE---EE--------------------------------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeee--cCCCCceeEEEE---EE--------------------------------
Confidence            35699999999999999999997421100  000011100000   00                                


Q ss_pred             CCcccccceEEEeeCCChhH--------HHHHHHhccccCCeEEEEEEcCCCcccccccccchh------hHHHHhHhcc
Q psy1174          97 TGRFQLVRHVSFVDCPGHDI--------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH------DILMATMLNG  162 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~--------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~------~il~~~~~nk  162 (182)
                        ......++.|+||||+.+        |......++..+|++++|+|+.++ .....+..+..      ......++||
T Consensus        50 --~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~-~~~~~~~i~~~l~~~~~~~p~ilV~NK  126 (301)
T 1wf3_A           50 --LTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHP-PTPEDELVARALKPLVGKVPILLVGNK  126 (301)
T ss_dssp             --EEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSC-CCHHHHHHHHHHGGGTTTSCEEEEEEC
T ss_pred             --EEeCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCC-CChHHHHHHHHHHhhcCCCCEEEEEEC
Confidence              001127899999999865        677777888999999999999987 55444332211      2334567999


Q ss_pred             chhhh
Q psy1174         163 AAVMD  167 (182)
Q Consensus       163 ~d~~~  167 (182)
                      +|+..
T Consensus       127 ~Dl~~  131 (301)
T 1wf3_A          127 LDAAK  131 (301)
T ss_dssp             GGGCS
T ss_pred             cccCC
Confidence            99874

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.45  E-value=5.4e-15  Score=111.78  Aligned_cols=111  Identities=24%  Similarity=0.423  Sum_probs=73.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|.+....   .....+++......                             ...   
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~~~---~~~~~~~~~~~~~~-----------------------------~~~---   51 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSKVT---EQEAGGITQHIGAY-----------------------------QVT---   51 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTCSS---CSSCCSSSTTCCCC-----------------------------EEE---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCccc---cCCCCceeEeeeEE-----------------------------EEE---
Confidence            4578999999999999999999863211   00001111111110                             000   


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                           ..+..+.++||||+.+|.......+..+|++++|+|+.++ ...+..+.+.+.    +....++||+|+.+
T Consensus        52 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~~~~~~~~l~~~~~~~~p~ilv~nK~Dl~~  121 (178)
T 2lkc_A           52 -----VNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDG-VMPQTVEAINHAKAANVPIIVAINKMDKPE  121 (178)
T ss_dssp             -----ETTEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCC-CCHHHHHHHHHHGGGSCCEEEEEETTTSSC
T ss_pred             -----eCCceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCC-CcHHHHHHHHHHHhCCCCEEEEEECccCCc
Confidence                 1126789999999999887777778999999999999987 555555433321    23446699999864

>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=99.44  E-value=3.9e-14  Score=118.82  Aligned_cols=111  Identities=15%  Similarity=0.195  Sum_probs=70.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.-.|+++|++|+|||||+++|++.....  .+...+.|......   +                               
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~~~~i--~s~~~~tT~~~~~~---~-------------------------------   52 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGTKVSI--ISPKAGTTRMRVLG---V-------------------------------   52 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSC--CCSSSCCCCSCEEE---E-------------------------------
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCccc--cCCCCCceeeEEEE---E-------------------------------
Confidence            44579999999999999999999743110  00011111110000   0                               


Q ss_pred             CCCcccc-cceEEEeeCCChh----------HHHHHHHhccccCCeEEEEEEcCCCccccccccc-chh----hHHHHhH
Q psy1174          96 CTGRFQL-VRHVSFVDCPGHD----------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDC-PGH----DILMATM  159 (182)
Q Consensus        96 ~~~~~~~-~~~i~lIDtPGh~----------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~-l~~----~il~~~~  159 (182)
                         .... ..++.|+||||+.          .|...+..++..+|++++|+|+.++ ...+..+. +..    .+....+
T Consensus        53 ---~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~-~~~~~~~~~~~~l~~~~~pvilV  128 (308)
T 3iev_A           53 ---KNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEG-WRPRDEEIYQNFIKPLNKPVIVV  128 (308)
T ss_dssp             ---EEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTB-SCHHHHHHHHHHTGGGCCCEEEE
T ss_pred             ---EecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCC-CCchhHHHHHHHHHhcCCCEEEE
Confidence               0011 3789999999983          3556677888999999999999987 55444442 211    1334466


Q ss_pred             hccchhh
Q psy1174         160 LNGAAVM  166 (182)
Q Consensus       160 ~nk~d~~  166 (182)
                      +||+|+.
T Consensus       129 ~NK~Dl~  135 (308)
T 3iev_A          129 INKIDKI  135 (308)
T ss_dssp             EECGGGS
T ss_pred             EECccCC
Confidence            9999987

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.41  E-value=4.9e-14  Score=110.83  Aligned_cols=116  Identities=14%  Similarity=0.146  Sum_probs=69.5

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ....++|+++|++|+|||||+++|++..... ......+.|....+.     ...                       . 
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~-~~~~~~~~t~~~~~~-----~~~-----------------------~-   75 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLA-FASKTPGRTQHINYF-----SVG-----------------------P-   75 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSS-CTTCCCCSCCCEEEE-----EES-----------------------C-
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcce-eecCCCCcccceEEE-----Eec-----------------------C-
Confidence            3456789999999999999999998743100 001112222222110     000                       0 


Q ss_pred             CCCCCcccccceEEEeeCCCh----------h---HHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHH
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGH----------D---ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILM  156 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh----------~---~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~  156 (182)
                             .....+.++||||+          .   .+..........+|++++|+|+.++ ......+.+..    .+..
T Consensus        76 -------~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~-~~~~~~~~~~~l~~~~~p~  147 (223)
T 4dhe_A           76 -------AAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRP-LTELDRRMIEWFAPTGKPI  147 (223)
T ss_dssp             -------TTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSC-CCHHHHHHHHHHGGGCCCE
T ss_pred             -------CCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCC-CCHHHHHHHHHHHhcCCCE
Confidence                   01267999999995          2   2333445556668999999999987 55444332221    1233


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      +.++||+|+.+
T Consensus       148 i~v~nK~Dl~~  158 (223)
T 4dhe_A          148 HSLLTKCDKLT  158 (223)
T ss_dssp             EEEEECGGGSC
T ss_pred             EEEEeccccCC
Confidence            46699999875

>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=99.39  E-value=6.9e-14  Score=117.04  Aligned_cols=109  Identities=16%  Similarity=0.195  Sum_probs=67.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ...|+++|++|+|||||+++|++...           ++.....                             .+++...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~~~-----------~i~s~~~-----------------------------~tTr~~~   47 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQKI-----------SITSRKA-----------------------------QTTRHRI   47 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTCSE-----------EECCCCS-----------------------------SCCSSCE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCc-----------cccCCCC-----------------------------CcceeeE
Confidence            45799999999999999999997421           1100000                             0000000


Q ss_pred             CC-cccccceEEEeeCCChh-H--------HHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhcc
Q psy1174          97 TG-RFQLVRHVSFVDCPGHD-I--------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNG  162 (182)
Q Consensus        97 ~~-~~~~~~~i~lIDtPGh~-~--------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk  162 (182)
                      .. ......+++++||||+. .        |......++..+|++++|+|+..  +..+++.++.+.    .+...++||
T Consensus        48 ~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~--~~~~~~~i~~~l~~~~~P~ilvlNK  125 (301)
T 1ega_A           48 VGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR--WTPDDEMVLNKLREGKAPVILAVNK  125 (301)
T ss_dssp             EEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC--CCHHHHHHHHHHHSSSSCEEEEEES
T ss_pred             EEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCC--CCHHHHHHHHHHHhcCCCEEEEEEC
Confidence            00 00122789999999997 3        22233566789999999999975  455555433322    234466899


Q ss_pred             chhhh
Q psy1174         163 AAVMD  167 (182)
Q Consensus       163 ~d~~~  167 (182)
                      +|...
T Consensus       126 ~D~~~  130 (301)
T 1ega_A          126 VDNVQ  130 (301)
T ss_dssp             TTTCC
T ss_pred             cccCc
Confidence            99875

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.39  E-value=2.1e-13  Score=101.79  Aligned_cols=112  Identities=14%  Similarity=0.071  Sum_probs=68.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++......     ...++...+.  ..+..                             
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~-----~~~t~~~~~~--~~~~~-----------------------------   46 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVKGTFRES-----YIPTVEDTYR--QVISC-----------------------------   46 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSS-----CCCCSCEEEE--EEEEE-----------------------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCC-----CCCCccccEE--EEEEE-----------------------------
Confidence            46799999999999999999986321100     0001000000  00000                             


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh---------hHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH---------DILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~---------~il~~~~~nk~d~~~  167 (182)
                         ......+.++||||+.+|.......+..+|++++|+|+.+..........+..         .+....++||+|+.+
T Consensus        47 ---~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~  123 (172)
T 2erx_A           47 ---DKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP  123 (172)
T ss_dssp             ---TTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGG
T ss_pred             ---CCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEcccccc
Confidence               01125789999999999888777888999999999999875211111111110         123346699999764

>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=99.39  E-value=4.3e-13  Score=107.60  Aligned_cols=114  Identities=18%  Similarity=0.150  Sum_probs=66.2

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ....++|+++|++|+|||||+++|++...... .....++|.......                             ..+
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~-~~~~~~~t~~~~~~~-----------------------------~~~   75 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHS-GTAAKSITKKCEKRS-----------------------------SSW   75 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC--------CCSCEEEE-----------------------------EEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCcc-CCCCCceeeeEEEEE-----------------------------EEe
Confidence            34567899999999999999999997532100 000012222111100                             001


Q ss_pred             CCCCCcccccceEEEeeCCCh-----------hHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh---------
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGH-----------DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD---------  153 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh-----------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~---------  153 (182)
                      .        ...+.++||||.           ..+...+......+|++|+|+|+...  .....+.+...         
T Consensus        76 ~--------~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~--~~~~~~~l~~~~~~~~~~~~  145 (239)
T 3lxx_A           76 K--------ETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRY--TEEEHKATEKILKMFGERAR  145 (239)
T ss_dssp             T--------TEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCC--SSHHHHHHHHHHHHHHHHHG
T ss_pred             C--------CceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCC--CHHHHHHHHHHHHHhhhhcc
Confidence            1        268999999994           34555555666778999999999743  23323222111         


Q ss_pred             HHHHhHhccchhhh
Q psy1174         154 ILMATMLNGAAVMD  167 (182)
Q Consensus       154 il~~~~~nk~d~~~  167 (182)
                      ...+.++||+|..+
T Consensus       146 ~~~iiv~nK~D~~~  159 (239)
T 3lxx_A          146 SFMILIFTRKDDLG  159 (239)
T ss_dssp             GGEEEEEECGGGC-
T ss_pred             ceEEEEEeCCccCC
Confidence            12445689999764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.38  E-value=1.2e-13  Score=102.58  Aligned_cols=113  Identities=10%  Similarity=-0.032  Sum_probs=68.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|.+.......   ...+.... .....   .                          . 
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~---~~~~~~~~-~~~~~---~--------------------------~-   47 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKY---DPTIEDFY-RKEIE---V--------------------------D-   47 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCC---CTTCCEEE-EEEEE---E--------------------------T-
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccC---CCCcceeE-EEEEE---E--------------------------C-
Confidence            4578999999999999999999853211000   00000000 00000   0                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchh----hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH----DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~----~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++++|+|+.+..    ......+.+.+    ......++||+|+.+
T Consensus        48 -----~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~  122 (167)
T 1kao_A           48 -----SSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES  122 (167)
T ss_dssp             -----TEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGG
T ss_pred             -----CEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccc
Confidence                 11256899999999999887778889999999999999751    11111111111    123345699999764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.38  E-value=1.1e-13  Score=121.06  Aligned_cols=112  Identities=15%  Similarity=0.091  Sum_probs=70.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|++....  ..+...|+|.+.....+                             .+. 
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~--~~~~~~gtT~d~~~~~~-----------------------------~~~-  221 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERV--IVSNVAGTTRDAVDTSF-----------------------------TYN-  221 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTE--EEC---------CCEEE-----------------------------EET-
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCce--eecCCCCceeeeeEEEE-----------------------------EEC-
Confidence            4578999999999999999999975321  01112344443322111                             011 


Q ss_pred             CCCcccccceEEEeeCCCh----------hHHHHH-HHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHh
Q psy1174          96 CTGRFQLVRHVSFVDCPGH----------DILMAT-MLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATML  160 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh----------~~f~~~-~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~  160 (182)
                             +..+.++||||+          +.|... ...++..+|++|+|+|+.++ ...|..+.+.++    ...+..+
T Consensus       222 -------~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~-~s~~~~~~~~~~~~~~~~iiiv~  293 (436)
T 2hjg_A          222 -------QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEG-IIEQDKRIAGYAHEAGKAVVIVV  293 (436)
T ss_dssp             -------TEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTC-CCHHHHHHHHHHHHTTCEEEEEE
T ss_pred             -------CeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcC-CcHHHHHHHHHHHHcCCcEEEEE
Confidence                   267999999999          556543 34577899999999999998 666665533322    2234568


Q ss_pred             ccchhhh
Q psy1174         161 NGAAVMD  167 (182)
Q Consensus       161 nk~d~~~  167 (182)
                      ||+|+.+
T Consensus       294 NK~Dl~~  300 (436)
T 2hjg_A          294 NKWDAVD  300 (436)
T ss_dssp             ECGGGSC
T ss_pred             ECccCCC
Confidence            9999864

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.37  E-value=2.6e-13  Score=105.32  Aligned_cols=117  Identities=14%  Similarity=0.068  Sum_probs=68.8

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      +..+...+|+++|++|+|||||+++|++...... .....+.+....  .+.+                           
T Consensus        23 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~-~~~t~~~~~~~~--~~~~---------------------------   72 (199)
T 2p5s_A           23 FSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFREN-ISATLGVDFQMK--TLIV---------------------------   72 (199)
T ss_dssp             -----CEEEEEESSTTSSHHHHHHHHHHCCCC-----------CEEE--EEEE---------------------------
T ss_pred             cCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCcc-CCCCccceeEEE--EEEE---------------------------
Confidence            4455678999999999999999999985431100 000011111000  0000                           


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccch-------hhHHHHhHhccc
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPG-------HDILMATMLNGA  163 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~-------~~il~~~~~nk~  163 (182)
                        .      .....+.++||||+.+|.......+..+|++|+|+|+.++ ...+. .+.+.       ..+....++||+
T Consensus        73 --~------~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~-~s~~~~~~~~~~i~~~~~~~~piilv~NK~  143 (199)
T 2p5s_A           73 --D------GERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCE-KSFLNIREWVDMIEDAAHETVPIMLVGNKA  143 (199)
T ss_dssp             --T------TEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCH-HHHHTHHHHHHHHHHHC---CCEEEEEECG
T ss_pred             --C------CEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCCh-HHHHHHHHHHHHHHHhcCCCCCEEEEEECc
Confidence              0      1125799999999999998888888999999999999875 21111 11111       112334668999


Q ss_pred             hhhh
Q psy1174         164 AVMD  167 (182)
Q Consensus       164 d~~~  167 (182)
                      |+.+
T Consensus       144 Dl~~  147 (199)
T 2p5s_A          144 DIRD  147 (199)
T ss_dssp             GGHH
T ss_pred             cccc
Confidence            9864

>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=99.37  E-value=5.9e-13  Score=107.90  Aligned_cols=113  Identities=14%  Similarity=0.028  Sum_probs=66.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|++|+|||||+++|++........ ...++|......                             .+.+.
T Consensus        20 ~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~-~~~~~t~~~~~~-----------------------------~~~~~   69 (260)
T 2xtp_A           20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKL-GSQTLTKTCSKS-----------------------------QGSWG   69 (260)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCT-TSCCCCCSCEEE-----------------------------EEEET
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCcccCC-CCCceeeeeEEE-----------------------------EEEeC
Confidence            356789999999999999999999643110000 000011111000                             01112


Q ss_pred             CCCCcccccceEEEeeCCChhHH-----------HHHHHhccccCCeEEEEEEcCCCcccccccccchh---------hH
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDIL-----------MATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH---------DI  154 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f-----------~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~---------~i  154 (182)
                              +++++++||||+.++           ...+..++..+|++|+|+|+..  +..+....+..         ..
T Consensus        70 --------~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~--~~~~~~~~~~~l~~~~~~~~~~  139 (260)
T 2xtp_A           70 --------NREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGR--YTSQDQQAAQRVKEIFGEDAMG  139 (260)
T ss_dssp             --------TEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTC--CCHHHHHHHHHHHHHHCGGGGG
T ss_pred             --------CCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCC--CCHHHHHHHHHHHHHhCchhhc
Confidence                    278999999998654           3333446688999999999984  33333322211         12


Q ss_pred             HHHhHhc-cchhhh
Q psy1174         155 LMATMLN-GAAVMD  167 (182)
Q Consensus       155 l~~~~~n-k~d~~~  167 (182)
                      ....++| |+|+.+
T Consensus       140 ~~i~vv~nK~Dl~~  153 (260)
T 2xtp_A          140 HTIVLFTHKEDLNG  153 (260)
T ss_dssp             GEEEEEECGGGGTT
T ss_pred             cEEEEEEcccccCC
Confidence            2334566 999864

>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=99.37  E-value=3.5e-13  Score=103.51  Aligned_cols=114  Identities=15%  Similarity=0.198  Sum_probs=66.4

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      +.....++|+++|++|+|||||+++|++..... ......+.|....+     +.                         
T Consensus        18 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~t~~~~~-----~~-------------------------   66 (195)
T 1svi_A           18 YPEGGLPEIALAGRSNVGKSSFINSLINRKNLA-RTSSKPGKTQTLNF-----YI-------------------------   66 (195)
T ss_dssp             SCCSCCCEEEEEEBTTSSHHHHHHHHHTC--------------CCEEE-----EE-------------------------
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHHhCCCCcc-ccCCCCCceeeEEE-----EE-------------------------
Confidence            444556889999999999999999998642100 00111122221111     00                         


Q ss_pred             cCCCCCCcccccceEEEeeCCC----------hhHHHHHHHhcc---ccCCeEEEEEEcCCCcccccccccchh----hH
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPG----------HDILMATMLNGA---AVMDAALLLIGCDNAAKTPEIVDCPGH----DI  154 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPG----------h~~f~~~~~~~~---~~aD~ailVVda~~g~~~~qt~e~l~~----~i  154 (182)
                                ...++.++||||          +..|...+...+   ..+|++++|+|+..+ ......+.+..    ..
T Consensus        67 ----------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~  135 (195)
T 1svi_A           67 ----------INDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHA-PSNDDVQMYEFLKYYGI  135 (195)
T ss_dssp             ----------ETTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSC-CCHHHHHHHHHHHHTTC
T ss_pred             ----------ECCcEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCC-CCHHHHHHHHHHHHcCC
Confidence                      014689999999          666655444444   444999999999987 44333322211    12


Q ss_pred             HHHhHhccchhhh
Q psy1174         155 LMATMLNGAAVMD  167 (182)
Q Consensus       155 l~~~~~nk~d~~~  167 (182)
                      ....++||+|+.+
T Consensus       136 p~i~v~nK~Dl~~  148 (195)
T 1svi_A          136 PVIVIATKADKIP  148 (195)
T ss_dssp             CEEEEEECGGGSC
T ss_pred             CEEEEEECcccCC
Confidence            2346699999865

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.37  E-value=1.8e-13  Score=104.60  Aligned_cols=37  Identities=11%  Similarity=0.091  Sum_probs=33.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+..|.......+..+|++|+|+|+.++
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~  129 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNS  129 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCH
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCH
Confidence            6899999999999888778888999999999999976

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.37  E-value=2.1e-13  Score=101.31  Aligned_cols=114  Identities=14%  Similarity=-0.007  Sum_probs=66.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|++|+|||||+++|.+......     ...+....+.. . +..                           
T Consensus         2 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~-----~~~t~~~~~~~-~-~~~---------------------------   47 (168)
T 1u8z_A            2 LALHKVIMVGSGGVGKSALTLQFMYDEFVED-----YEPTKADSYRK-K-VVL---------------------------   47 (168)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSCCCSC-----CCTTCCEEEEE-E-EEE---------------------------
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCccCCC-----CCCCcceEEEE-E-EEE---------------------------
Confidence            3467899999999999999999985321100     00000000000 0 000                           


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cchh----hHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPGH----DILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~~----~il~~~~~nk~d~~  166 (182)
                           ......+.++||||+.+|.......+..+|++++|+|+.+..-.....+    ...+    .+....++||+|+.
T Consensus        48 -----~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~  122 (168)
T 1u8z_A           48 -----DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE  122 (168)
T ss_dssp             -----TTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG
T ss_pred             -----CCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECcccc
Confidence                 0112578999999999998888888899999999999997410011111    1111    12334669999986


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       123 ~  123 (168)
T 1u8z_A          123 D  123 (168)
T ss_dssp             G
T ss_pred             c
Confidence            5

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.36  E-value=9.8e-14  Score=106.76  Aligned_cols=86  Identities=12%  Similarity=0.089  Sum_probs=58.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .....+|+++|+.|+|||||+++|++......    ...-|+.....  .+                             
T Consensus        14 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~----~~~~t~~~~~~--~~-----------------------------   58 (199)
T 4bas_A           14 SKTKLQVVMCGLDNSGKTTIINQVKPAQSSSK----HITATVGYNVE--TF-----------------------------   58 (199)
T ss_dssp             --CEEEEEEECCTTSCHHHHHHHHSCCC--------CCCCCSSEEEE--EE-----------------------------
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhcCCCccc----ccccccceeEE--EE-----------------------------
Confidence            44567899999999999999999986432100    00011111100  00                             


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            ......+.++||||+.+|...+...+..+|++|+|+|+.++
T Consensus        59 ------~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   99 (199)
T 4bas_A           59 ------EKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDH   99 (199)
T ss_dssp             ------EETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCG
T ss_pred             ------EeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcH
Confidence                  01127899999999999988777788999999999999976

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.36  E-value=9.9e-14  Score=104.49  Aligned_cols=115  Identities=11%  Similarity=0.081  Sum_probs=69.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|+.|+|||||+++|++....   ......++.+.....+.+                             .
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~   59 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFD---NTYQATIGIDFLSKTMYL-----------------------------E   59 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCC---SSCCCCCSEEEEEEEEEE-----------------------------T
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCC---CCCCCceeeEEEEEEEEE-----------------------------C
Confidence            44578999999999999999999853211   000111111111110000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                            .....+.++||||+.+|...+...+..+|++++|+|+.+..-.....+.+..       .+....++||+|+.+
T Consensus        60 ------~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  133 (179)
T 2y8e_A           60 ------DRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSD  133 (179)
T ss_dssp             ------TEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGG
T ss_pred             ------CeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccc
Confidence                  0115789999999999888777778899999999999875111111111111       122345699999864

>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=99.36  E-value=1.7e-13  Score=120.58  Aligned_cols=114  Identities=13%  Similarity=0.082  Sum_probs=69.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ++..++|+++|++|+|||||+++|++....  ..+...|.|.+..+..                             ..+
T Consensus        20 ~m~~~~V~lvG~~nvGKSTL~n~l~~~~~~--~v~~~~g~t~~~~~~~-----------------------------~~~   68 (456)
T 4dcu_A           20 HMGKPVVAIVGRPNVGKSTIFNRIAGERIS--IVEDTPGVTRDRIYSS-----------------------------AEW   68 (456)
T ss_dssp             ---CCEEEEECSSSSSHHHHHHHHEEEEEC-------------CEEEE-----------------------------CTT
T ss_pred             hcCCCEEEEECCCCCcHHHHHHHHhCCCCc--ccCCCCCcceeEEEEE-----------------------------EEE
Confidence            355678999999999999999999863211  1112234444332211                             111


Q ss_pred             CCCCCcccccceEEEeeCCC--------hhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhc
Q psy1174          94 SSCTGRFQLVRHVSFVDCPG--------HDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLN  161 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPG--------h~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~n  161 (182)
                      .+        ..+.++||||        +..+......++..+|++|+|+|+..+ +.....+.....    .....++|
T Consensus        69 ~~--------~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~-~~~~d~~l~~~l~~~~~pvilV~N  139 (456)
T 4dcu_A           69 LN--------YDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREG-VTAADEEVAKILYRTKKPVVLAVN  139 (456)
T ss_dssp             CS--------SCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSC-SCHHHHHHHHHHTTCCSCEEEEEE
T ss_pred             CC--------ceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCC-CChHHHHHHHHHHHcCCCEEEEEE
Confidence            22        6799999999        778888888889999999999999988 666555432211    22335689


Q ss_pred             cchhhh
Q psy1174         162 GAAVMD  167 (182)
Q Consensus       162 k~d~~~  167 (182)
                      |+|..+
T Consensus       140 K~D~~~  145 (456)
T 4dcu_A          140 KLDNTE  145 (456)
T ss_dssp             CC----
T ss_pred             Cccchh
Confidence            999765

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.36  E-value=5e-13  Score=99.10  Aligned_cols=111  Identities=10%  Similarity=-0.020  Sum_probs=67.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|+.|+|||||+++|.+....  ..+...+.+........                             .     
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~-----------------------------~-----   45 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSA--VVADVPGVTRDLKEGVV-----------------------------E-----   45 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-------------CCEEEEE-----------------------------E-----
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCee--eccCCCCceecceEEEE-----------------------------E-----
Confidence            57999999999999999999864311  01111122221111000                             0     


Q ss_pred             CcccccceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCCCcccccccccch----hhHHHHhHhccchhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~----~~il~~~~~nk~d~~  166 (182)
                         ..+..+.++||||+..       +.......+..+|++++|+|+.++ ......+...    ..+....++||+|+.
T Consensus        46 ---~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~  121 (161)
T 2dyk_A           46 ---TDRGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAE-LTQADYEVAEYLRRKGKPVILVATKVDDP  121 (161)
T ss_dssp             ---ETTEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSC-CCHHHHHHHHHHHHHTCCEEEEEECCCSG
T ss_pred             ---eCCceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCc-ccHhHHHHHHHHHhcCCCEEEEEECcccc
Confidence               1125789999999876       555566678999999999999986 4333222111    112234669999987


Q ss_pred             hH
Q psy1174         167 DA  168 (182)
Q Consensus       167 ~~  168 (182)
                      +.
T Consensus       122 ~~  123 (161)
T 2dyk_A          122 KH  123 (161)
T ss_dssp             GG
T ss_pred             cc
Confidence            53

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.36  E-value=3.5e-13  Score=101.45  Aligned_cols=113  Identities=12%  Similarity=0.010  Sum_probs=69.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|+.|+|||||+++|.+....... ....+.+.....     +..                            
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~t~~~~~~~~~-----~~~----------------------------   59 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADC-PHTIGVEFGTRI-----IEV----------------------------   59 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSSC-TTSCCCCEEEEE-----EEE----------------------------
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCC-CCccceEEEEEE-----EEE----------------------------
Confidence            4578999999999999999999853211000 000011110000     000                            


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccch-------hhHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                          ......+.++||||+.+|.......+..+|++++|+|+.++. ..+. ...+.       ..+....++||+|+.+
T Consensus        60 ----~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  134 (179)
T 1z0f_A           60 ----SGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRS-TYNHLSSWLTDARNLTNPNTVIILIGNKADLEA  134 (179)
T ss_dssp             ----TTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHH-HHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGG
T ss_pred             ----CCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHH-HHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence                011257899999999999888888889999999999998762 1111 11111       1122346689999764

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.36  E-value=6.8e-14  Score=122.66  Aligned_cols=112  Identities=21%  Similarity=0.199  Sum_probs=69.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|++|+|||||+++|++....  ..+...++|.+..+..+.+                             .
T Consensus        32 ~~~~kI~IvG~~~vGKSTLin~L~~~~~~--~~~~~~gtT~d~~~~~~~~-----------------------------~   80 (423)
T 3qq5_A           32 GFRRYIVVAGRRNVGKSSFMNALVGQNVS--IVSDYAGTTTDPVYKSMEL-----------------------------H   80 (423)
T ss_dssp             CCCEEEEEECSCSTTTTTTTTSSCC---------------CCCCEEEEEE-----------------------------T
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHcCCCC--ccCCCCCeeeeeEEEEEEE-----------------------------C
Confidence            34578999999999999999999864321  1233455555443322211                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHH-------HHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccc
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILM-------ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGA  163 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~-------~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~  163 (182)
                             ...+++++||||+.+|.       ......+..+|++|+|+|+  + ...++.+.+..+    +....++||+
T Consensus        81 -------~~~~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~--~-~~~~~~~~l~~l~~~~~piIvV~NK~  150 (423)
T 3qq5_A           81 -------PIGPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDS--A-PTPYEDDVVNLFKEMEIPFVVVVNKI  150 (423)
T ss_dssp             -------TTEEEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSS--S-CCHHHHHHHHHHHHTTCCEEEECCCC
T ss_pred             -------CCCeEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeC--C-ChHHHHHHHHHHHhcCCCEEEEEeCc
Confidence                   01379999999998663       2345567889999999999  4 555665544321    2334669999


Q ss_pred             hhhh
Q psy1174         164 AVMD  167 (182)
Q Consensus       164 d~~~  167 (182)
                      |+.+
T Consensus       151 Dl~~  154 (423)
T 3qq5_A          151 DVLG  154 (423)
T ss_dssp             TTTT
T ss_pred             CCCC
Confidence            9875

>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=99.35  E-value=3.3e-13  Score=101.04  Aligned_cols=109  Identities=11%  Similarity=0.017  Sum_probs=69.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|.+.....      ...|+......+.                                
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~------~~~t~~~~~~~~~--------------------------------   47 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVVT------TIPTIGFNVETVT--------------------------------   47 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCC------CCCCSSEEEEEEE--------------------------------
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCCC------cCCcCccceEEEE--------------------------------
Confidence            35789999999999999999998532110      0011111110000                                


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cch----hhHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPG----HDILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~----~~il~~~~~nk~d~~~  167 (182)
                           ....++.++||||+.+|.......+..+|++++|+|+.+..-.....+    .+.    ..+....++||+|+.+
T Consensus        48 -----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  122 (171)
T 1upt_A           48 -----YKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ  122 (171)
T ss_dssp             -----ETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             -----ECCEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcC
Confidence                 012789999999999988777778899999999999987621111111    111    1123346699999764

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.35  E-value=1.1e-13  Score=104.43  Aligned_cols=87  Identities=11%  Similarity=0.071  Sum_probs=59.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|++....   .+.....+.......+.+                             . 
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~-   54 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADNTFS---GSYITTIGVDFKIRTVEI-----------------------------N-   54 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSCC------CCTTTBSEEEEEEEEEE-----------------------------T-
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCC---CccCCCceeEEEEEEEEE-----------------------------C-
Confidence            4578999999999999999999864321   111122222221111110                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           .....+.++||||+..|.......+..+|++++|+|+.++
T Consensus        55 -----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   94 (181)
T 3tw8_B           55 -----GEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSA   94 (181)
T ss_dssp             -----TEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCH
T ss_pred             -----CEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCH
Confidence                 0125789999999999887777788999999999999975

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.35  E-value=2.1e-13  Score=101.69  Aligned_cols=86  Identities=17%  Similarity=0.130  Sum_probs=57.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|+.|+|||||+++|.+....   .+...............+                             .  
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~--   48 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFA---ENKEPTIGAAFLTQRVTI-----------------------------N--   48 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCC---TTCCCCSSEEEEEEEEEE-----------------------------T--
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCC---CCCCCccceeEEEEEEEE-----------------------------C--
Confidence            468999999999999999999853311   000011111110000000                             0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ....++.++||||+..|.......+..+|++++|+|+.+.
T Consensus        49 ----~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   88 (170)
T 1ek0_A           49 ----EHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKP   88 (170)
T ss_dssp             ----TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCH
T ss_pred             ----CEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCCh
Confidence                0125799999999999888777888999999999999875

>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=99.35  E-value=1.8e-13  Score=105.35  Aligned_cols=112  Identities=13%  Similarity=0.059  Sum_probs=70.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .++..+|+++|+.|+|||||+++|.+.....     ....|+...+..+                               
T Consensus        19 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~-----~~~~t~~~~~~~~-------------------------------   62 (188)
T 1zd9_A           19 SKEEMELTLVGLQYSGKTTFVNVIASGQFNE-----DMIPTVGFNMRKI-------------------------------   62 (188)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSCCCC-----SCCCCCSEEEEEE-------------------------------
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHHcCCCCC-----ccCCCCceeEEEE-------------------------------
Confidence            3456789999999999999999998532110     0001111111000                               


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cch----hhHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPG----HDILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~----~~il~~~~~nk~d~  165 (182)
                            ......+.++||||+.+|...+...+..+|++|+|+|+.+..-.....+    .+.    ..+....++||+|+
T Consensus        63 ------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  136 (188)
T 1zd9_A           63 ------TKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDL  136 (188)
T ss_dssp             ------EETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTS
T ss_pred             ------EeCCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCC
Confidence                  0112789999999999998877788899999999999987521111111    111    11234466999997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       137 ~~  138 (188)
T 1zd9_A          137 PG  138 (188)
T ss_dssp             TT
T ss_pred             cc
Confidence            64

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.35  E-value=4.1e-13  Score=102.57  Aligned_cols=111  Identities=14%  Similarity=0.180  Sum_probs=66.1

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ....++|+++|+.|+|||||+++|++.....  .....+.+.....                                  
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~--~~~~~~~t~~~~~----------------------------------   63 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIAF--VSKTPGKTRSINF----------------------------------   63 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCSC--CCSSCCCCCCEEE----------------------------------
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCcccc--ccCCCCCccCeEE----------------------------------
Confidence            3445689999999999999999998643110  0000111111100                                  


Q ss_pred             CCCCCcccccceEEEeeCCC----------hhHH---HHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHH
Q psy1174          94 SSCTGRFQLVRHVSFVDCPG----------HDIL---MATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILM  156 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPG----------h~~f---~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~  156 (182)
                            .....++.++||||          ...|   ..........+|++++|+|+..+ ......+.+..    .+..
T Consensus        64 ------~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~-~~~~~~~~~~~~~~~~~p~  136 (195)
T 3pqc_A           64 ------YLVNSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIP-PQDSDLMMVEWMKSLNIPF  136 (195)
T ss_dssp             ------EEETTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSC-CCHHHHHHHHHHHHTTCCE
T ss_pred             ------EEECCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCC-CCHHHHHHHHHHHHcCCCE
Confidence                  01115688999999          4434   34445555667999999999876 44333322211    1233


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      ..++||+|+.+
T Consensus       137 i~v~nK~Dl~~  147 (195)
T 3pqc_A          137 TIVLTKMDKVK  147 (195)
T ss_dssp             EEEEECGGGSC
T ss_pred             EEEEEChhcCC
Confidence            46689999863

>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=99.35  E-value=9.7e-14  Score=114.53  Aligned_cols=112  Identities=17%  Similarity=0.172  Sum_probs=66.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|+|...   ......|+|+......+.                             .. 
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~---~v~~~~g~t~~~~~~~~~-----------------------------~~-   48 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQ---RVGNWAGVTVERKEGQFS-----------------------------TT-   48 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCE---EEEECTTSSSEEEEEEEE-----------------------------CS-
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCc---ccCCCCCeeEEEEEEEEE-----------------------------eC-
Confidence            357899999999999999999997431   111112333332221110                             01 


Q ss_pred             CCCcccccceEEEeeCCChhHHHH---------H---HHhccccCCeEEEEEEcCCCcccc-cccccchhhHHHHhHhcc
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMA---------T---MLNGAAVMDAALLLIGCDNAAKTP-EIVDCPGHDILMATMLNG  162 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~---------~---~~~~~~~aD~ailVVda~~g~~~~-qt~e~l~~~il~~~~~nk  162 (182)
                             ...+.++||||+.+|..         .   .......+|++|+|+|+....... .+.+.....+.....+||
T Consensus        49 -------~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~~~p~ivv~NK  121 (274)
T 3i8s_A           49 -------DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIPCIVALNM  121 (274)
T ss_dssp             -------SCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGGHHHHHHHHHHHHHHTCCEEEEEEC
T ss_pred             -------CCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCChHHHHHHHHHHHhcCCCEEEEEEC
Confidence                   26799999999876541         1   112236899999999998631000 011111123344566999


Q ss_pred             chhhh
Q psy1174         163 AAVMD  167 (182)
Q Consensus       163 ~d~~~  167 (182)
                      +|+.+
T Consensus       122 ~Dl~~  126 (274)
T 3i8s_A          122 LDIAE  126 (274)
T ss_dssp             HHHHH
T ss_pred             ccchh
Confidence            99865

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.34  E-value=2.3e-13  Score=118.99  Aligned_cols=110  Identities=15%  Similarity=0.128  Sum_probs=64.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|++|+|||||+++|++....  ..+...|.|.+..+..                             ..+.+  
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~--~v~~~~g~T~d~~~~~-----------------------------~~~~~--   50 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERIS--IVEDTPGVTRDRIYSS-----------------------------AEWLN--   50 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-------------CEEEE-----------------------------CTTCS--
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce--eecCCCCCccceEEEE-----------------------------EEECC--
Confidence            57999999999999999999864221  1122344444433311                             11222  


Q ss_pred             CcccccceEEEeeCCChh--------HHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccchh
Q psy1174          98 GRFQLVRHVSFVDCPGHD--------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAAV  165 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~--------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d~  165 (182)
                            ..+.++||||+.        .+......++..||++|+|+|+..| ......++...    ......++||+|.
T Consensus        51 ------~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~-~~~~d~~~~~~l~~~~~pvilv~NK~D~  123 (436)
T 2hjg_A           51 ------YDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREG-VTAADEEVAKILYRTKKPVVLAVNKLDN  123 (436)
T ss_dssp             ------SCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTC-SCHHHHHHHHHHTTCCSCEEEEEECCCC
T ss_pred             ------ceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCC-CCHHHHHHHHHHHHcCCCEEEEEECccC
Confidence                  679999999985        5666777788999999999999998 55544332211    1223456899997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      ..
T Consensus       124 ~~  125 (436)
T 2hjg_A          124 TE  125 (436)
T ss_dssp             --
T ss_pred             cc
Confidence            65

>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=99.34  E-value=4.1e-13  Score=102.52  Aligned_cols=110  Identities=13%  Similarity=0.089  Sum_probs=70.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|++|+|||||+++|.+.....      ...|+......+.                               
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~------~~~t~~~~~~~~~-------------------------------   58 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGEDVDT------ISPTLGFNIKTLE-------------------------------   58 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCCCSS------CCCCSSEEEEEEE-------------------------------
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCCCCc------ccccCccceEEEE-------------------------------
Confidence            566889999999999999999998643110      0001111000000                               


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccchh----hHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPGH----DILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~~----~il~~~~~nk~d~~  166 (182)
                            ....++.++||||+.+|...+...+..+|++++|+|+.+..-....    .+.+.+    ......++||+|+.
T Consensus        59 ------~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  132 (186)
T 1ksh_A           59 ------HRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP  132 (186)
T ss_dssp             ------ETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST
T ss_pred             ------ECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCC
Confidence                  0127899999999999988777788999999999999875211111    111111    12344669999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       133 ~  133 (186)
T 1ksh_A          133 G  133 (186)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=99.34  E-value=1.5e-13  Score=112.63  Aligned_cols=112  Identities=14%  Similarity=0.112  Sum_probs=66.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+++|++|+|||||+++|+|...   ......++|+......+                             .+. 
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~---~~~~~~~~t~~~~~~~~-----------------------------~~~-   48 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQ---HVGNWPGVTVEKKEGIM-----------------------------EYR-   48 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCE---EEEECTTSSCEEEEEEE-----------------------------EET-
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCc---ccCCCCCeEEEeeEEEE-----------------------------EEC-
Confidence            467899999999999999999997432   11111233332221110                             011 


Q ss_pred             CCCcccccceEEEeeCCChhHHHH--------HHHhccccCCeEEEEEEcCCCcc-cccccccchhh-HHHHhHhccchh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMA--------TMLNGAAVMDAALLLIGCDNAAK-TPEIVDCPGHD-ILMATMLNGAAV  165 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~--------~~~~~~~~aD~ailVVda~~g~~-~~qt~e~l~~~-il~~~~~nk~d~  165 (182)
                             +..+.++||||+.+|..        ........+|++++|+|+..+.. ...+.+..... +....++||+|+
T Consensus        49 -------~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl  121 (271)
T 3k53_A           49 -------EKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCLMRNLFLTLELFEMEVKNIILVLNKFDL  121 (271)
T ss_dssp             -------TEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHHHHHHHHHHTTCCSEEEEEECHHH
T ss_pred             -------CceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcchhhHHHHHHHHhcCCCCEEEEEEChhc
Confidence                   26799999999876533        12222357999999999987520 00111111122 344566899997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       122 ~~  123 (271)
T 3k53_A          122 LK  123 (271)
T ss_dssp             HH
T ss_pred             Cc
Confidence            65

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.34  E-value=1.4e-13  Score=104.23  Aligned_cols=115  Identities=18%  Similarity=0.127  Sum_probs=69.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|+.|+|||||+++|++.....   +....+........+.+                              
T Consensus        10 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~------------------------------   56 (181)
T 2efe_B           10 SINAKLVLLGDVGAGKSSLVLRFVKDQFVE---FQESTIGAAFFSQTLAV------------------------------   56 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCTT---TSCCCSCCSEEEEEEEE------------------------------
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCCCCC---cCCCCceeEEEEEEEEE------------------------------
Confidence            345789999999999999999998532210   00011111110000000                              


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                           .....++.++||||+.+|.......+..+|++|+|+|+.+..-.....+.+..       .+....++||+|+.+
T Consensus        57 -----~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~  131 (181)
T 2efe_B           57 -----NDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLD  131 (181)
T ss_dssp             -----TTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTT
T ss_pred             -----CCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccc
Confidence                 01126799999999999888777778899999999999875111111111111       112335689999754

>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=99.34  E-value=4.2e-13  Score=99.97  Aligned_cols=64  Identities=9%  Similarity=0.134  Sum_probs=44.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----h----hhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----G----HDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~----~~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||+.+|.......+..+|++++|+|+.+..-.....+.+    .    .......+.||+|+.+
T Consensus        44 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (164)
T 1r8s_A           44 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN  115 (164)
T ss_dssp             CEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             EEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcC
Confidence            67999999999999887777889999999999998752011111111    1    0123346699999864

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.33  E-value=1.3e-13  Score=102.85  Aligned_cols=87  Identities=16%  Similarity=0.042  Sum_probs=58.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|++...... .+...+.+.....  ..+                               
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~-~~~~~~~~~~~~~--~~~-------------------------------   50 (170)
T 1r2q_A            5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEF-QESTIGAAFLTQT--VCL-------------------------------   50 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTT-CCCCSSEEEEEEE--EEE-------------------------------
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCCCCCC-CCCccceEEEEEE--EEE-------------------------------
Confidence            457899999999999999999985321100 0000111111100  000                               


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ......+.++||||+.+|.......+..+|++++|+|+.+.
T Consensus        51 ----~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   91 (170)
T 1r2q_A           51 ----DDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNE   91 (170)
T ss_dssp             ----TTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCH
T ss_pred             ----CCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCH
Confidence                01126799999999999988777888999999999999875

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.33  E-value=3.1e-13  Score=102.03  Aligned_cols=89  Identities=13%  Similarity=0.077  Sum_probs=59.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|++|+|||||+++|.+....   .+....+..+.....+.+                             .
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~---~~~~~t~~~~~~~~~~~~-----------------------------~   51 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFG---KQYKQTIGLDFFLRRITL-----------------------------P   51 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTT---HHHHHTTTSSEEEEEEEE-----------------------------T
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCC---CCCCCceeEEEEEEEEEe-----------------------------C
Confidence            44578999999999999999999864321   111111111111100000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      +     .....+.++||||+..|.......+..+|++++|+|+.++
T Consensus        52 ~-----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   92 (178)
T 2hxs_A           52 G-----NLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNY   92 (178)
T ss_dssp             T-----TEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCH
T ss_pred             C-----CCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCH
Confidence            0     0126799999999998877777778999999999999875

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.33  E-value=3.5e-13  Score=102.56  Aligned_cols=113  Identities=13%  Similarity=0.108  Sum_probs=70.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|++....   ......++.......+.+                             . 
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~-   55 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEKKFK---DDSNHTIGVEFGSKIINV-----------------------------G-   55 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCC---TTCCCCSEEEEEEEEEEE-----------------------------T-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCC---CCCCCccceEEEEEEEEE-----------------------------C-
Confidence            3578999999999999999999853211   011111111111110000                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccch-------hhHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.+.. ..+. ...+.       ..+....++||+|+.+
T Consensus        56 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  129 (186)
T 2bme_A           56 -----GKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRE-TYNALTNWLTDARMLASQNIVIILCGNKKDLDA  129 (186)
T ss_dssp             -----TEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHH-HHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGG
T ss_pred             -----CEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHH-HHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence                 01157899999999999998888899999999999998752 1111 11110       1122346689999864

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.33  E-value=1.9e-13  Score=102.23  Aligned_cols=114  Identities=11%  Similarity=0.024  Sum_probs=62.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|++.....   +....+........+.   .                          . 
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~~---~~~~t~~~~~~~~~~~---~--------------------------~-   51 (170)
T 1z08_A            5 YSFKVVLLGEGCVGKTSLVLRYCENKFND---KHITTLGASFLTKKLN---I--------------------------G-   51 (170)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCS---SCCCCCSCEEEEEEEE---S--------------------------S-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCc---CCCCccceEEEEEEEE---E--------------------------C-
Confidence            45789999999999999999998532110   0000011111000000   0                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-------hhHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++++|+|+.+..-.......+.       ..+....++||+|+.+
T Consensus        52 -----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  125 (170)
T 1z08_A           52 -----GKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEK  125 (170)
T ss_dssp             -----SCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGG
T ss_pred             -----CEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccc
Confidence                 011578899999999998877777899999999999987521111111111       1122345689999865

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.32  E-value=2.7e-13  Score=104.11  Aligned_cols=116  Identities=16%  Similarity=0.122  Sum_probs=68.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .++.++|+++|++|+|||||+++|++.....   .....+..+.....+.+                             
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~---~~~~t~~~~~~~~~~~~-----------------------------   64 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPD---RTEATIGVDFRERAVDI-----------------------------   64 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCS---SCCCCCSCCEEEEEEEE-----------------------------
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCC---CCCCCcceEEEEEEEEE-----------------------------
Confidence            3456899999999999999999998532110   00011111110000000                             


Q ss_pred             CCCCCcccccceEEEeeCCChhHHH-HHHHhccccCCeEEEEEEcCCCc----ccccccccchh----hHHHHhHhccch
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILM-ATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH----DILMATMLNGAA  164 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~-~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~----~il~~~~~nk~d  164 (182)
                      .      ....++.++||||+.+|. ......+..+|++|+|+|+.+..    ......++..+    .+....++||+|
T Consensus        65 ~------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~D  138 (189)
T 1z06_A           65 D------GERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCD  138 (189)
T ss_dssp             T------TEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTT
T ss_pred             C------CEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcc
Confidence            0      012579999999999988 55566678999999999998741    11111111111    123345689999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       139 l~~  141 (189)
T 1z06_A          139 LRS  141 (189)
T ss_dssp             CGG
T ss_pred             ccc
Confidence            764

>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=99.32  E-value=3.3e-13  Score=103.12  Aligned_cols=111  Identities=12%  Similarity=0.061  Sum_probs=68.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ..+..+|+++|+.|+|||||+++|.+....      ....|.......                             .  
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~------~~~~t~~~~~~~-----------------------------~--   60 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEVV------HTSPTIGSNVEE-----------------------------I--   60 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSCE------EEECCSSSSCEE-----------------------------E--
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCC------ccCCcCceeeEE-----------------------------E--
Confidence            345678999999999999999999863210      000000000000                             0  


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----h----hhHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----G----HDILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~----~~il~~~~~nk~d~  165 (182)
                            ...+..+.++||||+.+|.......+..+|++++|+|+.+..-.....+.+    .    ..+....++||+|+
T Consensus        61 ------~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  134 (181)
T 2h17_A           61 ------VINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  134 (181)
T ss_dssp             ------EETTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             ------EECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCc
Confidence                  011278999999999999877777889999999999999762111111111    1    11223466999997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       135 ~~  136 (181)
T 2h17_A          135 KE  136 (181)
T ss_dssp             TT
T ss_pred             cc
Confidence            64

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.32  E-value=2.4e-13  Score=102.58  Aligned_cols=89  Identities=13%  Similarity=0.148  Sum_probs=49.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|+.|+|||||+++|++....   .....  ++...+....+ ..                          .
T Consensus         6 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~--~~~~~~~~~~~-~~--------------------------~   53 (182)
T 1ky3_A            6 KNILKVIILGDSGVGKTSLMHRYVNDKYS---QQYKA--TIGADFLTKEV-TV--------------------------D   53 (182)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSCCC---TTC-----CCCSCEEEEE-CC--------------------------S
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCcCC---cccCC--ccceEEEEEEE-EE--------------------------c
Confidence            45678999999999999999999853211   00001  11111100000 00                          0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      +     .....+.++||||+..|.......+..+|++|+|+|+.++
T Consensus        54 ~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   94 (182)
T 1ky3_A           54 G-----DKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNA   94 (182)
T ss_dssp             S-----SCCEEEEEECCC----------CCSTTCCEEEEEEETTCH
T ss_pred             C-----CcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCCh
Confidence            0     0115789999999999998888888999999999999875

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.32  E-value=1.7e-13  Score=103.61  Aligned_cols=115  Identities=12%  Similarity=0.107  Sum_probs=63.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+..+|+++|++|+|||||+++|.+.....  ......++.......   +..                          .
T Consensus         8 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~--~~~~~t~~~~~~~~~---~~~--------------------------~   56 (180)
T 2g6b_A            8 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLA--GTFISTVGIDFRNKV---LDV--------------------------D   56 (180)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCC--CCCCCCCSCEEEEEE---EEE--------------------------T
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCC--CCcCCceeeEEEEEE---EEE--------------------------C
Confidence            345789999999999999999998532110  000011111110000   000                          0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccch-------hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPG-------HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~-------~~il~~~~~nk~d~~  166 (182)
                            .....+.++||||+.+|.......+..+|++++|+|+.++ ...+. .+.+.       ..+....++||+|+.
T Consensus        57 ------~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~  129 (180)
T 2g6b_A           57 ------GVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNK-ASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSA  129 (180)
T ss_dssp             ------TEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCH-HHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTT
T ss_pred             ------CEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCH-HHHHHHHHHHHHHHHhCCCCCcEEEEEECcccC
Confidence                  0125789999999999998888888999999999999875 21111 11111       112334568999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       130 ~  130 (180)
T 2g6b_A          130 H  130 (180)
T ss_dssp             S
T ss_pred             c
Confidence            4

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.32  E-value=4.4e-13  Score=102.01  Aligned_cols=123  Identities=12%  Similarity=0.000  Sum_probs=71.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|.+.....     ....|+...+.....+...+.                  .     .
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~-----~~~~t~~~~~~~~~~~~~~~~------------------~-----~   61 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTDGKFNS-----KFITTVGIDFREKRVVYRANG------------------P-----D   61 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCC-----SCCCCCSEEEEEEEEEECTTS------------------C-----C
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhcCCCCc-----CcccccceeeeeEEEEEecCC------------------c-----c
Confidence            35789999999999999999998532110     011111111110001111000                  0     0


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccchh--------hHHHHhHhccchhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPGH--------DILMATMLNGAAVM  166 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~~--------~il~~~~~nk~d~~  166 (182)
                      ..........+.++||||+..|.......+..+|++|+|+|+.++ ...+. ++.+..        .+....++||+|+.
T Consensus        62 ~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~  140 (195)
T 3bc1_A           62 GAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNE-QSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLE  140 (195)
T ss_dssp             CSSCCCEEEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCH-HHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCG
T ss_pred             cccccCcEEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCH-HHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc
Confidence            000001126899999999999999888889999999999999875 21111 111111        12234669999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       141 ~  141 (195)
T 3bc1_A          141 D  141 (195)
T ss_dssp             G
T ss_pred             c
Confidence            4

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.32  E-value=1.5e-12  Score=100.58  Aligned_cols=113  Identities=9%  Similarity=0.064  Sum_probs=68.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|+.|+|||||+++|.+....   ......++.......+.+                             . 
T Consensus        25 ~~~ki~vvG~~~~GKSsLi~~l~~~~~~---~~~~~t~~~~~~~~~~~~-----------------------------~-   71 (192)
T 2il1_A           25 FKLQVIIIGSRGVGKTSLMERFTDDTFC---EACKSTVGVDFKIKTVEL-----------------------------R-   71 (192)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHCC-----------CCTTEEEEEEEEEE-----------------------------T-
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCC---cCCCCccceeEEEEEEEE-----------------------------C-
Confidence            3468999999999999999999863211   111111111111110000                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-cc---ch----hhHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DC---PG----HDILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~---l~----~~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.++ ...+.. ..   +.    ..+....++||+|+.+
T Consensus        72 -----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~-~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~  145 (192)
T 2il1_A           72 -----GKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKK-ETFDDLPKWMKMIDKYASEDAELLLVGNKLDCET  145 (192)
T ss_dssp             -----TEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCH-HHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGG
T ss_pred             -----CeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCH-HHHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence                 0125789999999999998888888999999999999976 221111 11   10    1122345699999864

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.32  E-value=7.7e-13  Score=99.70  Aligned_cols=88  Identities=14%  Similarity=0.087  Sum_probs=59.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|++|+|||||+++|++....   .+....+........+.+                             .
T Consensus         5 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~   52 (177)
T 1wms_A            5 SSLFKVILLGDGGVGKSSLMNRYVTNKFD---TQLFHTIGVEFLNKDLEV-----------------------------D   52 (177)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCC---C----CCSEEEEEEEEEE-----------------------------T
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHcCCCC---CCCCCceeeeEEEEEEEE-----------------------------C
Confidence            34578999999999999999999853211   011111111111100000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.++||||+..|.......+..+|++++|+|+.++
T Consensus        53 ------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   92 (177)
T 1wms_A           53 ------GHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDS   92 (177)
T ss_dssp             ------TEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCH
T ss_pred             ------CEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCH
Confidence                  0115799999999999998888888999999999999976

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.32  E-value=1.1e-12  Score=100.86  Aligned_cols=87  Identities=17%  Similarity=0.090  Sum_probs=58.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|++|+|||||+++|++......     ...++...+..  .+..                           
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~-----~~~t~~~~~~~--~~~~---------------------------   51 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDT-----YIPTIEDTYRQ--VISC---------------------------   51 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCT-----TSCCCCEEEEE--EEEE---------------------------
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCc-----ccCccccceeE--EEEE---------------------------
Confidence            4567899999999999999999985321100     00011110000  0000                           


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ......+.++||||+.+|.......+..+|++++|+|+.+.
T Consensus        52 -----~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   92 (199)
T 2gf0_A           52 -----DKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSK   92 (199)
T ss_dssp             -----TTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             -----CCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCH
Confidence                 01125789999999999888777788999999999999874

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.31  E-value=5.1e-13  Score=101.20  Aligned_cols=115  Identities=13%  Similarity=-0.013  Sum_probs=69.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .++..+|+++|+.|+|||||+++|.+.......    .. +....+.  ..+..                          
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~----~~-t~~~~~~--~~~~~--------------------------   61 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDY----EP-TKADSYR--KKVVL--------------------------   61 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSC----CT-TCCEEEE--EEEEE--------------------------
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcC----CC-ccceEEE--EEEEE--------------------------
Confidence            345688999999999999999999853211000    00 0000000  00000                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccchh----hHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPGH----DILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~~----~il~~~~~nk~d~  165 (182)
                      .      .....+.++||||+.+|.......+..+|++++|+|+.+..-....    .++..+    .+....++||+|+
T Consensus        62 ~------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl  135 (187)
T 2a9k_A           62 D------GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDL  135 (187)
T ss_dssp             T------TEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGG
T ss_pred             C------CEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            0      0115789999999999988888888999999999999874100011    111111    1233466899998


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       136 ~~  137 (187)
T 2a9k_A          136 ED  137 (187)
T ss_dssp             GG
T ss_pred             cc
Confidence            65

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.31  E-value=2.8e-13  Score=100.91  Aligned_cols=113  Identities=14%  Similarity=0.006  Sum_probs=68.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|.+.....   +  ...|....+..  .+..                          . 
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~---~--~~~t~~~~~~~--~~~~--------------------------~-   47 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVE---K--YDPTIEDSYRK--QVEV--------------------------D-   47 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCC---S--CCCCSEEEEEE--EEES--------------------------S-
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCC---C--CCCCccceEEE--EEEE--------------------------C-
Confidence            35689999999999999999998532110   0  00011111100  0000                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchh----hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH----DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~----~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+..|.......+..+|++++|+|+.+..    ......++..+    .+....++||+|+.+
T Consensus        48 -----~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~  122 (167)
T 1c1y_A           48 -----CQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED  122 (167)
T ss_dssp             -----SCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGG
T ss_pred             -----CEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccc
Confidence                 11267899999999988877777788899999999998741    11111111111    122346699999764

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.31  E-value=8e-13  Score=103.56  Aligned_cols=124  Identities=11%  Similarity=0.065  Sum_probs=72.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|+.|+|||||+++|++.....     +...|+...+....+ .....           +...         
T Consensus        23 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~-----~~~~t~~~~~~~~~~-~~~~~-----------~~~~---------   76 (217)
T 2f7s_A           23 DYLIKLLALGDSGVGKTTFLYRYTDNKFNP-----KFITTVGIDFREKRV-VYNAQ-----------GPNG---------   76 (217)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCC-----EEEEEEEEEEEEEEE-EEEC-------------------------
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHhcCCCCc-----CCCCceeEEEEEEEE-EECCc-----------cccc---------
Confidence            445789999999999999999998643210     011122221111010 00000           0000         


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-c----ccch----hhHHHHhHhccchh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-V----DCPG----HDILMATMLNGAAV  165 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~----e~l~----~~il~~~~~nk~d~  165 (182)
                        ........++.++||||+.+|.......+..+|++|+|+|+.+.. ..+. +    ++..    ..+..+.++||+|+
T Consensus        77 --~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~-s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl  153 (217)
T 2f7s_A           77 --SSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQ-SFLNVRNWMSQLQANAYCENPDIVLIGNKADL  153 (217)
T ss_dssp             ----CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHH-HHHHHHHHHHTCCCCCTTTCCEEEEEEECTTC
T ss_pred             --cccCceeEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHH-HHHHHHHHHHHHHHhcCcCCCCEEEEEECCcc
Confidence              000011367999999999999988888889999999999998752 1110 1    1111    12334566999997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       154 ~~  155 (217)
T 2f7s_A          154 PD  155 (217)
T ss_dssp             GG
T ss_pred             cc
Confidence            64

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.31  E-value=4.6e-13  Score=104.49  Aligned_cols=114  Identities=11%  Similarity=0.099  Sum_probs=68.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|+.|+|||||+++|.+....   .+  ...|+...+....+ ..                          . 
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~~~~---~~--~~~t~~~~~~~~~~-~~--------------------------~-   74 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTGAFS---ER--QGSTIGVDFTMKTL-EI--------------------------Q-   74 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSCC---------------CEEEEEE-EE--------------------------T-
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhCCCC---CC--CCCCcceEEEEEEE-EE--------------------------C-
Confidence            4578999999999999999999853321   11  11122111110000 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.+..-.....+.+..       .+....+.||+|+.+
T Consensus        75 -----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~  148 (201)
T 2hup_A           75 -----GKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSE  148 (201)
T ss_dssp             -----TEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGG
T ss_pred             -----CEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCcccc
Confidence                 0115799999999999998888888999999999999875111111111111       122345689999764

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.31  E-value=5e-13  Score=104.91  Aligned_cols=87  Identities=13%  Similarity=0.088  Sum_probs=59.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|++....   .  ..+.|+...+....+ ..                          . 
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~---~--~~~~t~~~~~~~~~~-~~--------------------------~-   71 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQGLFP---P--GQGATIGVDFMIKTV-EI--------------------------N-   71 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCC---T--TCCCCCSEEEEEEEE-EE--------------------------T-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCCCC---C--CCCCccceeEEEEEE-EE--------------------------C-
Confidence            4578999999999999999999853211   0  011121111110000 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ....++.++||||+.+|.......+..+|++|+|+|+.+.
T Consensus        72 -----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~  111 (201)
T 2ew1_A           72 -----GEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCE  111 (201)
T ss_dssp             -----TEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCH
T ss_pred             -----CEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCH
Confidence                 0125789999999999998888888999999999999875

>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=99.30  E-value=1.3e-12  Score=114.37  Aligned_cols=110  Identities=17%  Similarity=0.094  Sum_probs=67.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      +.|+++|++|+|||||+++|++....  ..+...|+|.+..+..+.                             +.+  
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~--~v~~~~g~T~d~~~~~~~-----------------------------~~~--   48 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKA--IVEDEEGVTRDPVQDTVE-----------------------------WYG--   48 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC----------------CCSEEEEE-----------------------------ETT--
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCc--eecCCCCCccceeeEEEE-----------------------------ECC--
Confidence            46899999999999999999974311  112234555444332211                             222  


Q ss_pred             CcccccceEEEeeCCChhH---------HHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccch
Q psy1174          98 GRFQLVRHVSFVDCPGHDI---------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAA  164 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~---------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d  164 (182)
                            ..+.++||||...         +......++..||++|+|+|+..| ......+....    ......++||+|
T Consensus        49 ------~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~-~~~~d~~i~~~l~~~~~p~ilv~NK~D  121 (439)
T 1mky_A           49 ------KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRG-ITKEDESLADFLRKSTVDTILVANKAE  121 (439)
T ss_dssp             ------EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTC-CCHHHHHHHHHHHHHTCCEEEEEESCC
T ss_pred             ------eEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCC-CCHHHHHHHHHHHHcCCCEEEEEeCCC
Confidence                  6799999999653         455566778999999999999988 54433221111    122345699999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      ..+
T Consensus       122 ~~~  124 (439)
T 1mky_A          122 NLR  124 (439)
T ss_dssp             SHH
T ss_pred             Ccc
Confidence            764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.30  E-value=2e-13  Score=105.04  Aligned_cols=115  Identities=10%  Similarity=0.006  Sum_probs=69.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|++|+|||||+++|.+....... ....+.+.....  ..+                              
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~-~~t~~~~~~~~~--~~~------------------------------   69 (193)
T 2oil_A           23 NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDS-RTTIGVEFSTRT--VML------------------------------   69 (193)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCSSC-CCCSSEEEEEEE--EEE------------------------------
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCC-CCccceeEEEEE--EEE------------------------------
Confidence            34578999999999999999999853211000 000011111000  000                              


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-------hhHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                           ......+.++||||+.+|.......+..+|++|+|+|+....-.......+.       ..+....++||+|+.+
T Consensus        70 -----~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~  144 (193)
T 2oil_A           70 -----GTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQ  144 (193)
T ss_dssp             -----TTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGG
T ss_pred             -----CCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCccc
Confidence                 0112678999999999888777777899999999999987511011111111       1122345689999864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.30  E-value=2e-13  Score=104.79  Aligned_cols=114  Identities=8%  Similarity=0.035  Sum_probs=70.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|++....   .+.....+.......+.+                             . 
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~-   61 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDTYT---ESYISTIGVDFKIRTIEL-----------------------------D-   61 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCC---SCCCCCSSEEEEEEEEEE-----------------------------T-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCC---CCCCCcccceEEEEEEEE-----------------------------C-
Confidence            4568999999999999999999853211   010111122211111110                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+..|.......+..+|++|+|+|+.+..-.....+.+..       .+....++||+|+.+
T Consensus        62 -----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~  135 (196)
T 3tkl_A           62 -----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT  135 (196)
T ss_dssp             -----TEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT
T ss_pred             -----CEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccc
Confidence                 0115789999999999988888888999999999999975111111111110       122345689999764

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.30  E-value=2.2e-13  Score=106.13  Aligned_cols=115  Identities=12%  Similarity=0.096  Sum_probs=67.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|+.|+|||||+++|++....   .+....++.......+.+                             .
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~---~~~~~t~~~~~~~~~~~~-----------------------------~   70 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFK---QDSNHTIGVEFGSRVVNV-----------------------------G   70 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC---------------CCEEEEEEEE-----------------------------T
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCC---ccCCCcccceeEEEEEEE-----------------------------C
Confidence            34578999999999999999999853211   111111111111100000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-------hhHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                            .....+.++||||+.+|.......+..+|++|+|+|+.+..-.......+.       ..+....++||+|+.+
T Consensus        71 ------~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  144 (200)
T 2o52_A           71 ------GKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDP  144 (200)
T ss_dssp             ------TEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGG
T ss_pred             ------CeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccc
Confidence                  011579999999999887766677789999999999987521111111111       1122346689999864

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.30  E-value=1.7e-13  Score=104.05  Aligned_cols=113  Identities=13%  Similarity=0.030  Sum_probs=66.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCc-cchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCccc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQT-VRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL   92 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~-~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (182)
                      ....++|+++|++|+|||||+++|++... .....  ..+.+.   .....   .                         
T Consensus         3 ~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~--t~~~~~---~~~~~---~-------------------------   49 (181)
T 3t5g_A            3 QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDP--TIENTF---TKLIT---V-------------------------   49 (181)
T ss_dssp             CEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCT--TCCEEE---EEEEE---E-------------------------
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCC--CccccE---EEEEE---E-------------------------
Confidence            34467899999999999999999984221 10000  000010   00000   0                         


Q ss_pred             CCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchh----hHHHHhHhccch
Q psy1174          93 RSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH----DILMATMLNGAA  164 (182)
Q Consensus        93 ~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~----~il~~~~~nk~d  164 (182)
                       .      ....++.++||||+.+|.......+..+|++++|+|+.+..    +.....+++.+    .+....++||+|
T Consensus        50 -~------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~D  122 (181)
T 3t5g_A           50 -N------GQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKD  122 (181)
T ss_dssp             -T------TEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTT
T ss_pred             -C------CEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcc
Confidence             0      11257899999999988665566678899999999998741    11111111111    123346689999


Q ss_pred             hh
Q psy1174         165 VM  166 (182)
Q Consensus       165 ~~  166 (182)
                      +.
T Consensus       123 l~  124 (181)
T 3t5g_A          123 LH  124 (181)
T ss_dssp             CT
T ss_pred             ch
Confidence            74

>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=99.30  E-value=1.9e-13  Score=105.00  Aligned_cols=86  Identities=14%  Similarity=0.084  Sum_probs=57.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ..+..+|+++|+.|+|||||+++|.+....  .  .....|+......+.                             .
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~--~--~~~~~t~~~~~~~~~-----------------------------~   64 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQ--S--QNILPTIGFSIEKFK-----------------------------S   64 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGC--C--SSCCCCSSEEEEEEE-----------------------------C
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCC--C--CCcCCccceeEEEEE-----------------------------E
Confidence            345678999999999999999999864210  0  001111111100000                             0


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .        +..+.++||||+.+|.......+..+|++|+|+|+.+.
T Consensus        65 ~--------~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~  103 (190)
T 2h57_A           65 S--------SLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDR  103 (190)
T ss_dssp             S--------SCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCH
T ss_pred             C--------CEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCH
Confidence            1        26799999999999888777788999999999999875

>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=99.29  E-value=8.1e-13  Score=100.94  Aligned_cols=120  Identities=17%  Similarity=0.093  Sum_probs=72.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhH-----hhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNE-----LERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSF   89 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e-----~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (182)
                      ....+|+++|++|+|||||++.|.+.........     .+...|+...+....+                        .
T Consensus        12 ~~~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~------------------------~   67 (198)
T 3t1o_A           12 EINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDI------------------------G   67 (198)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSC------------------------C
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeeccccc------------------------c
Confidence            4557899999999999999988876432110000     0011122222210000                        0


Q ss_pred             cccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------------hHHH
Q psy1174          90 PCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------------DILM  156 (182)
Q Consensus        90 ~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------------~il~  156 (182)
                      ..        .....++.++||||+.+|.......+..+|++|+|+|+.++ ...+..+.+..             .+..
T Consensus        68 ~~--------~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~-~~~~~~~s~~~l~~~l~~~~~~~~~~pi  138 (198)
T 3t1o_A           68 EV--------KGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPN-RLRANAESMRNMRENLAEYGLTLDDVPI  138 (198)
T ss_dssp             CS--------SSCEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGG-GHHHHHHHHHHHHHHHHHTTCCTTSSCE
T ss_pred             cc--------cCCceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcc-hhhHhHHHHHHHHHHHHhhccccCCCCE
Confidence            00        01126799999999999988888888999999999999965 33332222211             1233


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      ..+.||+|+.+
T Consensus       139 ilv~NK~Dl~~  149 (198)
T 3t1o_A          139 VIQVNKRDLPD  149 (198)
T ss_dssp             EEEEECTTSTT
T ss_pred             EEEEEchhccc
Confidence            45689999754

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.29  E-value=2e-13  Score=105.82  Aligned_cols=88  Identities=9%  Similarity=0.104  Sum_probs=58.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+..+|+++|++|+|||||+++|++.....   .....++.+.....+.+                             .
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~---~~~~t~~~~~~~~~~~~-----------------------------~   53 (207)
T 1vg8_A            6 KVLLKVIILGDSGVGKTSLMNQYVNKKFSN---QYKATIGADFLTKEVMV-----------------------------D   53 (207)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSCCCS---SCCCCCSEEEEEEEEES-----------------------------S
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCC---CCCCcccceEEEEEEEE-----------------------------C
Confidence            456789999999999999999998543110   00011111111100000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.++||||+..|.......+..+|++|+|+|+.++
T Consensus        54 ------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   93 (207)
T 1vg8_A           54 ------DRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAP   93 (207)
T ss_dssp             ------SCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCH
T ss_pred             ------CEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCH
Confidence                  0125799999999999887767777899999999999876

>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=99.29  E-value=4.7e-13  Score=102.60  Aligned_cols=111  Identities=13%  Similarity=0.072  Sum_probs=66.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      +++..+|+++|+.|+|||||+++|.+.....      ..-|+......                             .  
T Consensus        13 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~------~~~t~~~~~~~-----------------------------~--   55 (187)
T 1zj6_A           13 NHQEHKVIIVGLDNAGKTTILYQFSMNEVVH------TSPTIGSNVEE-----------------------------I--   55 (187)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHHTTSCEE------EECCSCSSCEE-----------------------------E--
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCc------CcCCCccceEE-----------------------------E--
Confidence            3556889999999999999999998532110      00011000000                             0  


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccch----hhHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPG----HDILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~----~~il~~~~~nk~d~  165 (182)
                            ......+.++||||+.+|.......+..+|++|+|+|+.++.-.....    +.+.    .......++||+|+
T Consensus        56 ------~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  129 (187)
T 1zj6_A           56 ------VINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  129 (187)
T ss_dssp             ------EETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTS
T ss_pred             ------EECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCC
Confidence                  011278999999999988776667778999999999998762111111    1111    11233466999997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       130 ~~  131 (187)
T 1zj6_A          130 KE  131 (187)
T ss_dssp             TT
T ss_pred             cC
Confidence            64

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.29  E-value=4.4e-13  Score=103.23  Aligned_cols=115  Identities=12%  Similarity=0.087  Sum_probs=68.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+..+|+++|+.|+|||||+++|.+.....   .....++.......+.+                             .
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~---~~~~t~~~~~~~~~~~~-----------------------------~   66 (191)
T 2a5j_A           19 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQP---VHDLTIGVEFGARMVNI-----------------------------D   66 (191)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC--------CCSSEEEEEEEE-----------------------------T
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCC---CCCCcccceeEEEEEEE-----------------------------C
Confidence            345789999999999999999998532210   00011111110000000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                            .....+.++||||+.+|.......+..+|++|+|+|+.+..-.......+..       .+....++||+|+.+
T Consensus        67 ------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~  140 (191)
T 2a5j_A           67 ------GKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLES  140 (191)
T ss_dssp             ------TEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGG
T ss_pred             ------CEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCC
Confidence                  0125789999999998877666777899999999999875211111111111       122345689999764

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.29  E-value=1e-12  Score=102.77  Aligned_cols=114  Identities=14%  Similarity=0.001  Sum_probs=68.2

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      +++..+|+++|++|+|||||+++|++.....   + ....+.........+                             
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~---~-~~~t~~~~~~~~~~~-----------------------------   73 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPG---E-YIPTVFDNYSANVMV-----------------------------   73 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-----CCCCSEEEEEEEEEC-----------------------------
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCC---C-cCCeecceeEEEEEE-----------------------------
Confidence            4566899999999999999999998432110   0 001111110000000                             


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc--ccc---hh---hHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV--DCP---GH---DILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~--e~l---~~---~il~~~~~nk~d~  165 (182)
                      .      .....+.++||||+.+|.......+..+|++++|+|+.++. ..+..  ..+   ..   .+....++||+|+
T Consensus        74 ~------~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  146 (204)
T 4gzl_A           74 D------GKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPA-SFENVRAKWYPEVRHHCPNTPIILVGTKLDL  146 (204)
T ss_dssp             C-------CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHH-HHHHHHHTHHHHHHHHCSSCCEEEEEECHHH
T ss_pred             C------CEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHH-HHHHHHHHHHHHHHHhCCCCCEEEEEechhh
Confidence            0      01256779999999999887777889999999999999762 11111  111   00   1223466899998


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       147 ~~  148 (204)
T 4gzl_A          147 RD  148 (204)
T ss_dssp             HT
T ss_pred             cc
Confidence            75

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.29  E-value=7.4e-13  Score=102.31  Aligned_cols=115  Identities=13%  Similarity=-0.010  Sum_probs=69.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .++.++|+++|++|+|||||+++|.+......     ...|....+.  ..+..                          
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~-----~~~t~~~~~~--~~~~~--------------------------   57 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVED-----YEPTKADSYR--KKVVL--------------------------   57 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTT-----CCTTCCEEEE--EEEEE--------------------------
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCC-----CCCccceEEE--EEEEE--------------------------
Confidence            45567899999999999999999985321100     0000000000  00000                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccchh----hHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPGH----DILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~~----~il~~~~~nk~d~  165 (182)
                      .      .....+.++||||+.+|.......+..+|++++|+|+.+..-.....    +...+    .+..+.++||+|+
T Consensus        58 ~------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl  131 (206)
T 2bov_A           58 D------GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDL  131 (206)
T ss_dssp             T------TEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTC
T ss_pred             C------CEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCc
Confidence            0      01157899999999999887778889999999999998741000011    11111    1233466999997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       132 ~~  133 (206)
T 2bov_A          132 ED  133 (206)
T ss_dssp             GG
T ss_pred             cc
Confidence            65

>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=99.29  E-value=4.1e-13  Score=110.00  Aligned_cols=111  Identities=14%  Similarity=0.081  Sum_probs=64.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|++|+|||||+++|+|...   ......|+|+......+.                                  
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~---~v~~~pg~Tv~~~~~~~~----------------------------------   44 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQ---RVGNWPGVTVEKKTGEFL----------------------------------   44 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSE---EEEECTTSSSEEEEEEEE----------------------------------
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCC---CccCCCCceEEEEEEEEE----------------------------------
Confidence            4799999999999999999997431   011112333322211100                                  


Q ss_pred             CcccccceEEEeeCCChhHHHHH---------HH---hccccCCeEEEEEEcCCCcccc-cccccchhhHHHHhHhccch
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMAT---------ML---NGAAVMDAALLLIGCDNAAKTP-EIVDCPGHDILMATMLNGAA  164 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~---------~~---~~~~~aD~ailVVda~~g~~~~-qt~e~l~~~il~~~~~nk~d  164 (182)
                         ..+..+.++||||+.+|...         +.   .....+|++|+|+|+....... .+.+.....+.....+||+|
T Consensus        45 ---~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~~~~~~~l~~~l~~~~~pvilv~NK~D  121 (256)
T 3iby_A           45 ---LGEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACHLERHLYLTSQLFELGKPVVVALNMMD  121 (256)
T ss_dssp             ---ETTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGGHHHHHHHHHHHTTSCSCEEEEEECHH
T ss_pred             ---ECCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCCchhHHHHHHHHHHcCCCEEEEEEChh
Confidence               11267999999998765431         11   1226799999999998631000 00111112244556699999


Q ss_pred             hhhH
Q psy1174         165 VMDA  168 (182)
Q Consensus       165 ~~~~  168 (182)
                      +...
T Consensus       122 l~~~  125 (256)
T 3iby_A          122 IAEH  125 (256)
T ss_dssp             HHHH
T ss_pred             cCCc
Confidence            8753

>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=99.29  E-value=4.6e-13  Score=117.77  Aligned_cols=113  Identities=16%  Similarity=0.097  Sum_probs=72.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|++|+|||||+++|++....  ..+...|+|.+.....                             ..  
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~--~~~~~~gtt~~~~~~~-----------------------------~~--  239 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERV--IVSNVAGTTRDAVDTS-----------------------------FT--  239 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTE--EECC------CTTSEE-----------------------------EE--
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCcc--ccCCCCCeEEEEEEEE-----------------------------EE--
Confidence            34578999999999999999999964311  0111122232221110                             00  


Q ss_pred             CCCCcccccceEEEeeCCC----------hhHHHHH-HHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          95 SCTGRFQLVRHVSFVDCPG----------HDILMAT-MLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPG----------h~~f~~~-~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                            ..+.++.++||||          .+.|... ...++..+|++|+|+|+.++ ...+..+++..+    ...+.+
T Consensus       240 ------~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~-~~~~~~~~~~~~~~~~~~~ilv  312 (456)
T 4dcu_A          240 ------YNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEG-IIEQDKRIAGYAHEAGKAVVIV  312 (456)
T ss_dssp             ------ETTEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTC-CCHHHHHHHHHHHHTTCEEEEE
T ss_pred             ------ECCceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCC-cCHHHHHHHHHHHHcCCCEEEE
Confidence                  1126899999999          5667654 34577899999999999998 777766644322    223456


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|+.+
T Consensus       313 ~NK~Dl~~  320 (456)
T 4dcu_A          313 VNKWDAVD  320 (456)
T ss_dssp             EECGGGSC
T ss_pred             EEChhcCC
Confidence            99999864

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.29  E-value=8.1e-13  Score=97.70  Aligned_cols=85  Identities=16%  Similarity=0.078  Sum_probs=56.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|+.|+|||||+++|.+.......   ..  +....+.  ..+..                          .  
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~---~~--~~~~~~~--~~~~~--------------------------~--   47 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDEC---DP--TIEDSYR--KQVVI--------------------------D--   47 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCC---CT--TCCEEEE--EEEEE--------------------------T--
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCcccc---CC--ccceEEE--EEEEE--------------------------C--
Confidence            467999999999999999999853211000   00  0000000  00000                          0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....+.++||||+.+|.......+..+|++++|+|+.+.
T Consensus        48 ----~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   87 (166)
T 2ce2_X           48 ----GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT   87 (166)
T ss_dssp             ----TEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCH
T ss_pred             ----CEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCH
Confidence                1125689999999998887777788899999999999865

>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=99.28  E-value=5.3e-13  Score=103.41  Aligned_cols=111  Identities=14%  Similarity=0.102  Sum_probs=65.2

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .++..+|+++|++|+|||||+++|.+.....      ...|+......  +                           . 
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~------~~~t~~~~~~~--~---------------------------~-   69 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIVT------TIPTIGFNVET--V---------------------------E-   69 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCEE------EEEETTEEEEE--E---------------------------E-
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCccc------cCCcCceeEEE--E---------------------------E-
Confidence            3556789999999999999999998532110      00011110000  0                           0 


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh--------hHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH--------DILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~--------~il~~~~~nk~d~  165 (182)
                             .....+.++||||+.+|.......+..+|++++|+|+.++.-.....+.+..        .+....++||+|+
T Consensus        70 -------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl  142 (192)
T 2b6h_A           70 -------YKNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDM  142 (192)
T ss_dssp             -------ETTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             -------ECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCC
Confidence                   0126899999999998877667778899999999999875211111111110        1233466899998


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       143 ~~  144 (192)
T 2b6h_A          143 PN  144 (192)
T ss_dssp             TT
T ss_pred             CC
Confidence            64

>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=99.28  E-value=7.9e-13  Score=103.67  Aligned_cols=80  Identities=13%  Similarity=0.102  Sum_probs=54.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|++|+|||||+++|.+.........  ...++...                                    
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~--~~~~~~~~------------------------------------   51 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVS--QEPLSAAD------------------------------------   51 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCC--SSCEEETT------------------------------------
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeee--cCceEEEE------------------------------------
Confidence            4557899999999999999999986321100000  00000000                                    


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhcccc----CCeEEEEEEcC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV----MDAALLLIGCD  138 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~----aD~ailVVda~  138 (182)
                            .....+.++||||+..|...+...+..    +|++|+|+|+.
T Consensus        52 ------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~   93 (218)
T 1nrj_B           52 ------YDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDST   93 (218)
T ss_dssp             ------GGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETT
T ss_pred             ------eeCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECC
Confidence                  012678999999999887766666655    89999999998

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.28  E-value=4.3e-13  Score=102.00  Aligned_cols=114  Identities=16%  Similarity=0.074  Sum_probs=48.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|.+....   .+....++.+.....+.+   +                           
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~~~~~---~~~~~t~~~~~~~~~~~~---~---------------------------   53 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSEDAFN---STFISTIGIDFKIRTIEL---D---------------------------   53 (183)
T ss_dssp             EEEEEEEECCCCC-------------------CHHHHHCEEEEEEEEEE---T---------------------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCC---CCCCCcccceeEEEEEEE---C---------------------------
Confidence            3578999999999999999999853211   111122222221111111   0                           


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.+..-.....+.+..       .+....+.||+|+.+
T Consensus        54 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  127 (183)
T 2fu5_C           54 -----GKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVND  127 (183)
T ss_dssp             -----TEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCS
T ss_pred             -----CEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCc
Confidence                 0126799999999999988777778999999999999875111111111111       123346689999753

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.27  E-value=1.8e-12  Score=98.28  Aligned_cols=113  Identities=12%  Similarity=0.025  Sum_probs=67.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|.+......     ...|+...+. ..+ ..                          . 
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~-----~~~t~~~~~~-~~~-~~--------------------------~-   49 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGE-----YIPTVFDNYS-ANV-MV--------------------------D-   49 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSS-----CCCCSCCEEE-EEE-EE--------------------------T-
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCC-----cCCcccceeE-EEE-EE--------------------------C-
Confidence            457899999999999999999984321100     0000000000 000 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-ccc---hh---hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DCP---GH---DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~l---~~---~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++++|+|+.++.-..... ..+   ..   .+....++||+|+.+
T Consensus        50 -----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  123 (186)
T 1mh1_A           50 -----GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRD  123 (186)
T ss_dssp             -----TEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHT
T ss_pred             -----CEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccc
Confidence                 11256889999999999877677788999999999998752111111 111   00   122346699999865

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.27  E-value=1.9e-13  Score=106.32  Aligned_cols=117  Identities=13%  Similarity=0.016  Sum_probs=68.8

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      |..++.++|+++|.+|+|||||+++|++......     ...|....+.  ..+..                        
T Consensus        19 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~-----~~~t~~~~~~--~~~~~------------------------   67 (201)
T 3oes_A           19 MPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEG-----YDPTVENTYS--KIVTL------------------------   67 (201)
T ss_dssp             ----CEEEEEEEESTTSSHHHHHHHHHHSCCCSC-----CCCCSEEEEE--EEEC-------------------------
T ss_pred             CCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCC-----CCCccceEEE--EEEEE------------------------
Confidence            4556678999999999999999999985432100     0001111110  00000                        


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchh----hHHHHhHhccc
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH----DILMATMLNGA  163 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~----~il~~~~~nk~  163 (182)
                              ......+.++||||+.+|.......+..+|++++|+|+.+..    ......++..+    .+....++||+
T Consensus        68 --------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~  139 (201)
T 3oes_A           68 --------GKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKA  139 (201)
T ss_dssp             -----------CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECT
T ss_pred             --------CCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECc
Confidence                    011267899999999988877777788999999999998641    11111111111    12344668999


Q ss_pred             hhhh
Q psy1174         164 AVMD  167 (182)
Q Consensus       164 d~~~  167 (182)
                      |+.+
T Consensus       140 Dl~~  143 (201)
T 3oes_A          140 DLSP  143 (201)
T ss_dssp             TCGG
T ss_pred             cCcc
Confidence            9764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.27  E-value=2.1e-13  Score=104.61  Aligned_cols=110  Identities=11%  Similarity=0.011  Sum_probs=68.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|++|+|||||+++|.+......      ..|+......                             .   
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~------~~t~~~~~~~-----------------------------~---   61 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVTT------VPTVGVNLET-----------------------------L---   61 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEEE------CSSTTCCEEE-----------------------------E---
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCCc------CCCCceEEEE-----------------------------E---
Confidence            5678899999999999999999975321100      0000000000                             0   


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cch----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~----~~il~~~~~nk~d~~  166 (182)
                           .....++.++||||+.+|.......+..+|++++|+|+.+..-.....+    .+.    .......++||+|+.
T Consensus        62 -----~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  136 (189)
T 2x77_A           62 -----QYKNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLP  136 (189)
T ss_dssp             -----EETTEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTST
T ss_pred             -----EECCEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCc
Confidence                 0112789999999998887666667789999999999987621111111    111    112344669999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       137 ~  137 (189)
T 2x77_A          137 D  137 (189)
T ss_dssp             T
T ss_pred             C
Confidence            4

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.27  E-value=2.1e-13  Score=101.84  Aligned_cols=86  Identities=12%  Similarity=0.033  Sum_probs=56.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++....   ......++.......+.   .                          .  
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~---~~~~~~~~~~~~~~~~~---~--------------------------~--   48 (170)
T 1g16_A            3 IMKILLIGDSGVGKSCLLVRFVEDKFN---PSFITTIGIDFKIKTVD---I--------------------------N--   48 (170)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCC---C-------CCEEEEEEE---S--------------------------S--
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCC---CCCCCccceeEEEEEEE---E--------------------------C--
Confidence            468999999999999999999854321   01111111111110000   0                          0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....+.++||||+..|.......+..+|++++|+|+.+.
T Consensus        49 ----~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   88 (170)
T 1g16_A           49 ----GKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDE   88 (170)
T ss_dssp             ----SCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCH
T ss_pred             ----CEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCH
Confidence                0115789999999998877666777899999999999875

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.27  E-value=7.2e-13  Score=102.11  Aligned_cols=90  Identities=17%  Similarity=0.077  Sum_probs=59.1

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      ...+...+|+++|++|+|||||+++|.+.....   .  ...|+...+.. .+ ..                        
T Consensus        18 ~~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~---~--~~~t~~~~~~~-~~-~~------------------------   66 (194)
T 3reg_A           18 ENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPT---A--YVPTVFENFSH-VM-KY------------------------   66 (194)
T ss_dssp             ---CEEEEEEEECSTTSSHHHHHHHHHHSCCCS---S--CCCCSEEEEEE-EE-EE------------------------
T ss_pred             cccceeeEEEEECcCCCCHHHHHHHHhcCCCCC---c--cCCeeeeeeEE-EE-EE------------------------
Confidence            344556789999999999999999998533110   0  00111111100 00 00                        


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        .      .....+.++||||+.+|.......+..+|++++|+|+.+.
T Consensus        67 --~------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  107 (194)
T 3reg_A           67 --K------NEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNR  107 (194)
T ss_dssp             --T------TEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCH
T ss_pred             --C------CEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCH
Confidence              0      0125679999999999988777788999999999999975

>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=99.26  E-value=5.8e-12  Score=96.50  Aligned_cols=110  Identities=13%  Similarity=0.107  Sum_probs=70.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|++|+|||||+++|.+.....        .....++....+                           .  
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~~--------~~~t~g~~~~~~---------------------------~--   56 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDISH--------ITPTQGFNIKSV---------------------------Q--   56 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCEE--------EEEETTEEEEEE---------------------------E--
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCc--------ccCcCCeEEEEE---------------------------E--
Confidence            456789999999999999999998642110        011111100000                           0  


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccch----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~----~~il~~~~~nk~d~~  166 (182)
                            .....+.++||||+..|.......+..+|++++|+|+.+..-....    .+.+.    ..+....+.||+|+.
T Consensus        57 ------~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  130 (181)
T 1fzq_A           57 ------SQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLL  130 (181)
T ss_dssp             ------ETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTST
T ss_pred             ------ECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcc
Confidence                  0126799999999999988878888999999999999875211111    11111    123344669999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       131 ~  131 (181)
T 1fzq_A          131 T  131 (181)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.26  E-value=6.4e-13  Score=103.56  Aligned_cols=109  Identities=12%  Similarity=0.066  Sum_probs=63.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+..+|+++|++|+|||||+++|.+....      +...|+......                             .   
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~------~~~~t~~~~~~~-----------------------------~---   64 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG------QHVPTLHPTSEE-----------------------------L---   64 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC------------CCCCCSCEE-----------------------------E---
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC------ccCCCCCceeEE-----------------------------E---
Confidence            34568999999999999999999863210      000011110000                             0   


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccc----cccccch----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTP----EIVDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~----qt~e~l~----~~il~~~~~nk~d~~  166 (182)
                           ...+.++.++||||+..|.......+..+|++++|+|+.+..-..    +..+.+.    ..++...+.||+|+.
T Consensus        65 -----~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  139 (198)
T 1f6b_A           65 -----TIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRP  139 (198)
T ss_dssp             -----EETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTST
T ss_pred             -----EECCEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCcc
Confidence                 011267999999999988776666778999999999998752111    1111111    123344669999975

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.26  E-value=3.1e-12  Score=97.20  Aligned_cols=87  Identities=16%  Similarity=0.103  Sum_probs=57.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+..+|+++|++|+|||||+++|.+.....   ....  +....+.  ..+..                          .
T Consensus        16 ~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~---~~~~--t~~~~~~--~~~~~--------------------------~   62 (183)
T 3kkq_A           16 LPTYKLVVVGDGGVGKSALTIQFFQKIFVD---DYDP--TIEDSYL--KHTEI--------------------------D   62 (183)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSCCCS---CCCT--TCCEEEE--EEEEE--------------------------T
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC---CCCC--CccceeE--EEEEe--------------------------C
Confidence            456789999999999999999998532110   0000  1111000  00000                          0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.++||||+..|.......+..+|++++|+|+.++
T Consensus        63 ------~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  102 (183)
T 3kkq_A           63 ------NQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK  102 (183)
T ss_dssp             ------TEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCH
T ss_pred             ------CcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCH
Confidence                  1114577899999999887777778899999999999975

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.26  E-value=3.1e-12  Score=95.41  Aligned_cols=87  Identities=10%  Similarity=-0.040  Sum_probs=58.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|++...... .....+.+.....  ..+                               
T Consensus         5 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~--~~~-------------------------------   50 (170)
T 1z0j_A            5 RELKVCLLGDTGVGKSSIMWRFVEDSFDPN-INPTIGASFMTKT--VQY-------------------------------   50 (170)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTT-CCCCCSEEEEEEE--EEE-------------------------------
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCC-CCCceeEEEEEEE--EEE-------------------------------
Confidence            357899999999999999999986431100 0000111111100  000                               


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ......+.++||||+.+|.......+..+|++++|+|+.++
T Consensus        51 ----~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   91 (170)
T 1z0j_A           51 ----QNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKE   91 (170)
T ss_dssp             ----TTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCH
T ss_pred             ----CCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCH
Confidence                01126789999999999887777778999999999999876

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.26  E-value=6.4e-13  Score=108.55  Aligned_cols=26  Identities=27%  Similarity=0.228  Sum_probs=23.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +..++|+++|++|+|||||+++|++.
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            35688999999999999999999974

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.26  E-value=3e-12  Score=96.45  Aligned_cols=113  Identities=17%  Similarity=0.137  Sum_probs=67.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|+.|+|||||+++|++.....   ....  |....+.  ..+..                          . 
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~~~~---~~~~--t~~~~~~--~~~~~--------------------------~-   53 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSYFVS---DYDP--TIEDSYT--KICSV--------------------------D-   53 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSSCCS---SCCT--TCCEEEE--EEEEE--------------------------T-
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCcCcc---ccCC--CcCceEE--EEEEE--------------------------C-
Confidence            45789999999999999999998542110   0000  0000000  00000                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccchh----hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPGH----DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~~----~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++++|+|+.+..-.....    +++.+    .+....++||+|+.+
T Consensus        54 -----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  128 (181)
T 2fn4_A           54 -----GIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLES  128 (181)
T ss_dssp             -----TEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGG
T ss_pred             -----CEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence                 01157899999999988766666778899999999998751101111    11111    122345699999765

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.26  E-value=1.2e-12  Score=97.50  Aligned_cols=114  Identities=17%  Similarity=0.171  Sum_probs=67.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|.+.....     ....|+...+....+ ..                          . 
T Consensus         4 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~-----~~~~t~~~~~~~~~~-~~--------------------------~-   50 (168)
T 1z2a_A            4 VAIKMVVVGNGAVGKSSMIQRYCKGIFTK-----DYKKTIGVDFLERQI-QV--------------------------N-   50 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCC-----CSSCCCSSSEEEEEE-EE--------------------------T-
T ss_pred             eeEEEEEECcCCCCHHHHHHHHHcCCCCC-----CCCCceEEEEEEEEE-EE--------------------------C-
Confidence            45789999999999999999998532110     000111111100000 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh------hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH------DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~------~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+..|.......+..+|++++|+|+.+..-.......+..      ......++||+|+.+
T Consensus        51 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  123 (168)
T 1z2a_A           51 -----DEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLD  123 (168)
T ss_dssp             -----TEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGG
T ss_pred             -----CEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccCc
Confidence                 1125799999999998877666677899999999999875201111111111      122335689999764

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.25  E-value=3.1e-12  Score=99.06  Aligned_cols=113  Identities=12%  Similarity=-0.021  Sum_probs=69.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++....... ....+.+.....  +.+                                
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~-~~t~~~~~~~~~--~~~--------------------------------   52 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDSFTPAF-VSTVGIDFKVKT--IYR--------------------------------   52 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCCCCSCC-CCCCSEEEEEEE--EEE--------------------------------
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCc-CCccceeEEEEE--EEE--------------------------------
Confidence            468999999999999999999864321000 000111111100  000                                


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                         ......+.++||||+.+|.......+..+|++|+|+|+.++.-.......+..       ......++||+|+.+
T Consensus        53 ---~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  127 (203)
T 1zbd_A           53 ---NDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMED  127 (203)
T ss_dssp             ---TTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTT
T ss_pred             ---CCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCc
Confidence               01126799999999999998888888999999999999875210111111110       122346689999764

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.25  E-value=1.9e-12  Score=116.70  Aligned_cols=65  Identities=22%  Similarity=0.285  Sum_probs=46.6

Q ss_pred             ceEEEeeCCChhH-----------HHHHHHhccccCCeEEEEEEcCCCcccccccccchh----hHHHHhHhccchhhhH
Q psy1174         104 RHVSFVDCPGHDI-----------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----DILMATMLNGAAVMDA  168 (182)
Q Consensus       104 ~~i~lIDtPGh~~-----------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----~il~~~~~nk~d~~~~  168 (182)
                      .++.||||||+.+           |...+...+..+|++|+|+|+.......+..+++..    ....+.++||+|+.+.
T Consensus       154 ~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          154 ESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVET  233 (550)
T ss_dssp             HHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGGEEEEEECGGGSCH
T ss_pred             CCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCCEEEEEECCCccCH
Confidence            4699999999875           667677778999999999999873144444443322    2334567999998753

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.25  E-value=1.1e-12  Score=101.22  Aligned_cols=114  Identities=13%  Similarity=0.057  Sum_probs=69.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|+.|+|||||+++|++..... ......+.+.....    + ..                        .   
T Consensus        22 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~----~-~~------------------------~---   68 (192)
T 2fg5_A           22 RELKVCLLGDTGVGKSSIVCRFVQDHFDH-NISPTIGASFMTKT----V-PC------------------------G---   68 (192)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHCCCCT-TCCCCSSEEEEEEE----E-EC------------------------S---
T ss_pred             CceEEEEECcCCCCHHHHHHHHhcCCCCC-CcCCCcceeEEEEE----E-Ee------------------------C---
Confidence            35789999999999999999998543110 00000111111110    0 00                        0   


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.+..-.......+..       .+....++||+|+.+
T Consensus        69 -----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~  142 (192)
T 2fg5_A           69 -----NELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSD  142 (192)
T ss_dssp             -----SSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGG
T ss_pred             -----CEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccc
Confidence                 1126799999999999888777788999999999999876211111111111       122335689999864

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.25  E-value=1.2e-12  Score=97.73  Aligned_cols=84  Identities=14%  Similarity=-0.011  Sum_probs=43.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|.+.....  .....+.+.....   .+                                
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~---~~--------------------------------   44 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGP--EAEAAGHTYDRSI---VV--------------------------------   44 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC------------CEEEEEE---EE--------------------------------
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccC--CCCccccceEEEE---EE--------------------------------
Confidence            4679999999999999999998643210  0111111211100   00                                


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         ......+.++||||+..|.......+..+|++++|+|+.+.
T Consensus        45 ---~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   85 (166)
T 3q72_A           45 ---DGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDK   85 (166)
T ss_dssp             ---TTEEEEEEEEECC---------------CCEEEEEEETTCH
T ss_pred             ---CCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCH
Confidence               01126788999999999988777778999999999999864

>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=99.25  E-value=7.6e-13  Score=108.40  Aligned_cols=113  Identities=12%  Similarity=0.087  Sum_probs=66.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|++....   .....|.|+......+.                                
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l~g~~~~---~~~~pg~tv~~~~~~~~--------------------------------   48 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNALTGTKQY---VANWPGVTVEKKEGVFT--------------------------------   48 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHTTCEE---EEECTTSCCEEEEEEEE--------------------------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCc---ccCCCCceEEEEEEEEE--------------------------------
Confidence            3468999999999999999999974311   11112333332211100                                


Q ss_pred             CCCcccccceEEEeeCCChhHHHH-----HHHhc---cccCCeEEEEEEcCCCccc-ccccccchhhHHHHhHhccchhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMA-----TMLNG---AAVMDAALLLIGCDNAAKT-PEIVDCPGHDILMATMLNGAAVM  166 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~-----~~~~~---~~~aD~ailVVda~~g~~~-~qt~e~l~~~il~~~~~nk~d~~  166 (182)
                           .....+.++||||+..|..     .+.+.   ...+|++++|+|+...... ..+.+.....+..+.++||+|+.
T Consensus        49 -----~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~~~~~~~~l~~~~~pvilv~NK~Dl~  123 (258)
T 3a1s_A           49 -----YKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPEQSLYLLLEILEMEKKVILAMTAIDEA  123 (258)
T ss_dssp             -----ETTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCHHHHHHHHHHHTTTCCEEEEEECHHHH
T ss_pred             -----ECCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchhhHHHHHHHHHhcCCCEEEEEECcCCC
Confidence                 0126899999999865532     11111   1579999999999875210 01111111234455679999986


Q ss_pred             hH
Q psy1174         167 DA  168 (182)
Q Consensus       167 ~~  168 (182)
                      ..
T Consensus       124 ~~  125 (258)
T 3a1s_A          124 KK  125 (258)
T ss_dssp             HH
T ss_pred             Cc
Confidence            53

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.25  E-value=1.7e-12  Score=98.61  Aligned_cols=86  Identities=13%  Similarity=0.001  Sum_probs=53.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|++.......    .+.+.........+                             . 
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~----~~t~~~~~~~~~~~-----------------------------~-   48 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEY----DPTIEDSYRKQVVI-----------------------------D-   48 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCC----CTTCCEEEEEEEEE-----------------------------T-
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCC----CCCchheEEEEEEE-----------------------------C-
Confidence            3568999999999999999999853211000    00000000000000                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           .....+.++||||+..|.......+..+|++++|+|+.+.
T Consensus        49 -----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   88 (189)
T 4dsu_A           49 -----GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT   88 (189)
T ss_dssp             -----TEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCH
T ss_pred             -----CcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCH
Confidence                 1125688899999999888777778899999999999875

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.25  E-value=9.1e-13  Score=101.45  Aligned_cols=88  Identities=10%  Similarity=0.019  Sum_probs=59.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|+.|+|||||+++|++.....     ....+....+....+ ..                        .  
T Consensus        21 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~-----~~~~t~~~~~~~~~~-~~------------------------~--   68 (191)
T 3dz8_A           21 DYMFKLLIIGNSSVGKTSFLFRYADDTFTP-----AFVSTVGIDFKVKTV-YR------------------------H--   68 (191)
T ss_dssp             EECEEEEEEESTTSSHHHHHHHHHHHTTCC-----CEEEEETTTEEEEEE-EE------------------------T--
T ss_pred             CeeeEEEEECCCCcCHHHHHHHHhcCCCCc-----ccCCCeeeEEEEEEE-EE------------------------C--
Confidence            455789999999999999999998532110     000111111100000 00                        0  


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.++||||+..|.......+..+|++|+|+|+.+.
T Consensus        69 ------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  108 (191)
T 3dz8_A           69 ------EKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNE  108 (191)
T ss_dssp             ------TTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCH
T ss_pred             ------CEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCH
Confidence                  0126799999999999998888889999999999999875

>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=99.25  E-value=5.2e-13  Score=101.33  Aligned_cols=110  Identities=12%  Similarity=0.019  Sum_probs=65.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|++|+|||||+++|.+.....      ...|+......                             .   
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~------~~~t~~~~~~~-----------------------------~---   57 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEVVT------TKPTIGFNVET-----------------------------L---   57 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEEEE------ECSSTTCCEEE-----------------------------E---
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCcCc------cCCcCccceEE-----------------------------E---
Confidence            567899999999999999999998522100      00000000000                             0   


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc----cccch----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI----VDCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt----~e~l~----~~il~~~~~nk~d~~  166 (182)
                           .....++.++||||+.+|.......+..+|++++|+|+.+..-....    .+.+.    .......++||+|+.
T Consensus        58 -----~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  132 (183)
T 1moz_A           58 -----SYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQP  132 (183)
T ss_dssp             -----EETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTST
T ss_pred             -----EECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCC
Confidence                 01126799999999998877777778999999999999875211111    11111    112344669999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       133 ~  133 (183)
T 1moz_A          133 G  133 (183)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=99.25  E-value=1.7e-12  Score=115.30  Aligned_cols=111  Identities=15%  Similarity=0.030  Sum_probs=55.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++....  ......+.|.+.....+.                                 
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a--~vs~~~gtT~d~~~~~i~---------------------------------  277 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERA--IVSHMPGTTRDYIEECFI---------------------------------  277 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC--------------------CEEEE---------------------------------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCc--ccCCCCCceEEEEEEEEE---------------------------------
Confidence            356999999999999999999874210  111123333332211111                                 


Q ss_pred             CCcccccceEEEeeCCChhHHHHH--------HHhccccCCeEEEEEEcCCCcccc----cccccchh--hHHHHhHhcc
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMAT--------MLNGAAVMDAALLLIGCDNAAKTP----EIVDCPGH--DILMATMLNG  162 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~--------~~~~~~~aD~ailVVda~~g~~~~----qt~e~l~~--~il~~~~~nk  162 (182)
                          ..+..+.++||||+.++...        ....+..+|++|+|+|+..+ ...    ...+.+..  ......++||
T Consensus       278 ----~~g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~-~s~~~~~~~~~~l~~l~~~piIvV~NK  352 (476)
T 3gee_A          278 ----HDKTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTE-RLDDELTEIRELKAAHPAAKFLTVANK  352 (476)
T ss_dssp             ----ETTEEEEEEC--------------------CCCSSCSEEEEEEETTTC-SSGGGHHHHHHHHHHCTTSEEEEEEEC
T ss_pred             ----ECCeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCC-cchhhhHHHHHHHHhcCCCCEEEEEEC
Confidence                11267999999999776532        23456889999999999987 433    11111111  1233456899


Q ss_pred             chhhh
Q psy1174         163 AAVMD  167 (182)
Q Consensus       163 ~d~~~  167 (182)
                      +|+..
T Consensus       353 ~Dl~~  357 (476)
T 3gee_A          353 LDRAA  357 (476)
T ss_dssp             TTSCT
T ss_pred             cCCCC
Confidence            99865

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.25  E-value=8.8e-13  Score=101.22  Aligned_cols=113  Identities=12%  Similarity=0.005  Sum_probs=68.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++....... ....+.+.....  +.+                                
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~-~~t~~~~~~~~~--~~~--------------------------------   66 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDSFTPAF-VSTVGIDFKVKT--VYR--------------------------------   66 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSC-CCCCCCEEEEEE--EEE--------------------------------
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCc-CCceeEEEEEEE--EEE--------------------------------
Confidence            468999999999999999999854311000 000111111100  000                                


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                         ......+.++||||+.+|.......+..+|++|+|+|+.+..-.....+.+..       .+....++||+|+.+
T Consensus        67 ---~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  141 (189)
T 2gf9_A           67 ---HDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLED  141 (189)
T ss_dssp             ---TTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGG
T ss_pred             ---CCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccc
Confidence               01126799999999998887777788999999999999875211111111111       122346689999764

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.25  E-value=4.2e-13  Score=104.41  Aligned_cols=88  Identities=13%  Similarity=0.063  Sum_probs=57.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|++|+|||||+++|++....   .+....++.......+.+                             .
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~   65 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVEDKFN---PSFITTIGIDFKIKTVDI-----------------------------N   65 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHCCCC---CSSSCCCSCCEEEEEEEE-----------------------------T
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCC---cccCCcccceEEEEEEEE-----------------------------C
Confidence            34578999999999999999999853211   000011111111000000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.++||||+..|.......+..+|++|+|+|+.++
T Consensus        66 ------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~  105 (213)
T 3cph_A           66 ------GKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDE  105 (213)
T ss_dssp             ------TEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCH
T ss_pred             ------CEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCH
Confidence                  0115789999999999887667777899999999999875

>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=99.24  E-value=1.3e-12  Score=101.07  Aligned_cols=110  Identities=11%  Similarity=0.010  Sum_probs=67.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+..+|+++|++|+|||||+++|.+.....      ...|.......+                                
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~~------~~~t~~~~~~~~--------------------------------   62 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLAT------LQPTWHPTSEEL--------------------------------   62 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCCC------CCCCCSCEEEEE--------------------------------
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCc------cccCCCCCeEEE--------------------------------
Confidence            345689999999999999999998532110      000111100000                                


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccch----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPG----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~----~~il~~~~~nk~d~~  166 (182)
                           ...+..+.++||||+..|.......+..+|++++|+|+.++.-.....    +.+.    .......+.||+|+.
T Consensus        63 -----~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  137 (190)
T 1m2o_B           63 -----AIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAP  137 (190)
T ss_dssp             -----EETTEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTST
T ss_pred             -----EECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCc
Confidence                 011267999999999998876667778999999999999762111111    1111    112344569999975


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       138 ~  138 (190)
T 1m2o_B          138 N  138 (190)
T ss_dssp             T
T ss_pred             C
Confidence            3

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.24  E-value=8.2e-14  Score=108.19  Aligned_cols=87  Identities=9%  Similarity=0.061  Sum_probs=56.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|++....   .+.....+.......+.+                             . 
T Consensus        32 ~~~ki~vvG~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~-   78 (199)
T 3l0i_B           32 YLFKLLLIGDSGVGKSCLLLRFADDTYT---ESYISTIGVDFKIRTIEL-----------------------------D-   78 (199)
T ss_dssp             EEEEEEEECCTTSCCTTTTTSSBCCCCC---CHHHHHHCCSEEEEEEEE-----------------------------T-
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCC---CCcCCcccceEEEEEEEE-----------------------------C-
Confidence            4578999999999999999999864321   111122222221111110                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           .....+.++||||+..|.......+..+|++|+|+|+.+.
T Consensus        79 -----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  118 (199)
T 3l0i_B           79 -----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQ  118 (199)
T ss_dssp             -----TEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCS
T ss_pred             -----CEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCH
Confidence                 0115789999999998887667778899999999999976

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.24  E-value=4.4e-13  Score=104.26  Aligned_cols=113  Identities=11%  Similarity=0.050  Sum_probs=68.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|++|+|||||+++|.+.....   .....++.......+.+                             . 
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~---~~~~t~~~~~~~~~~~~-----------------------------~-   53 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDDTYTN---DYISTIGVDFKIKTVEL-----------------------------D-   53 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCT---TCCCSSCCCEEEEEEEE-----------------------------T-
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCC---CCCCcccceeEEEEEEE-----------------------------C-
Confidence            34689999999999999999998532110   00011111111000000                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccchh-------hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPGH-------DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~~-------~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.++ ...+. ...+..       .+....++||+|+.+
T Consensus        54 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~-~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  127 (206)
T 2bcg_Y           54 -----GKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQ-ESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKD  127 (206)
T ss_dssp             -----TEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCH-HHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTT
T ss_pred             -----CEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCH-HHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcc
Confidence                 0115799999999999887777778999999999999875 21111 111111       122345689999764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.24  E-value=1.7e-12  Score=100.23  Aligned_cols=119  Identities=11%  Similarity=0.113  Sum_probs=50.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|+.|+|||||+++|.+.... +..+  ...|+...+....+ .                          ..
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~--~~~t~~~~~~~~~~-~--------------------------~~   67 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSK-FLKD--YAMTSGVEVVVAPV-T--------------------------IP   67 (208)
T ss_dssp             EEEEEEEEC-------------------------------------CEEE-E--------------------------CT
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCc-ccCC--CCCccceEEEEEEE-E--------------------------EC
Confidence            44578999999999999999999864100 0000  11111111100000 0                          00


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh----------hHHHHhHhccch
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH----------DILMATMLNGAA  164 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~----------~il~~~~~nk~d  164 (182)
                      +.    .....+.++||||+.+|.......+..+|++|+|+|+.++.-.......+..          .+....++||+|
T Consensus        68 ~~----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~D  143 (208)
T 2yc2_C           68 DT----TVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTD  143 (208)
T ss_dssp             TS----SEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-
T ss_pred             Cc----ccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcc
Confidence            00    0026799999999999998888888999999999999876211111111111          123346689999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       144 l~~  146 (208)
T 2yc2_C          144 LPP  146 (208)
T ss_dssp             ---
T ss_pred             cch
Confidence            765

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.24  E-value=5.5e-13  Score=104.56  Aligned_cols=117  Identities=11%  Similarity=0.013  Sum_probs=67.5

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      +....+|+++|++|+|||||+++|++....... ....+.+...    ......                          
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~-~~t~~~~~~~----~~~~~~--------------------------   56 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNY-NATVGAVNHP----VTFLDD--------------------------   56 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEE-ETTTTEEEEE----EEEEBT--------------------------
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCC-CCccceeeEE----EEEEeC--------------------------
Confidence            345678999999999999999999853211000 0001111100    000000                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-ccchh-------hHHHHhHhccchh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DCPGH-------DILMATMLNGAAV  165 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~l~~-------~il~~~~~nk~d~  165 (182)
                      .      .....+.++||||+.+|.......+..+|++|+|+|+.++ ...+.. +.+..       ......++||+|+
T Consensus        57 ~------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  129 (218)
T 4djt_A           57 Q------GNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSR-ITCQNLARWVKEFQAVVGNEAPIVVCANKIDI  129 (218)
T ss_dssp             T------SCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCH-HHHHTHHHHHHHHHHHHCSSSCEEEEEECTTC
T ss_pred             C------CcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCH-HHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC
Confidence            0      0115689999999998876556667889999999999986 221111 11111       1233456899997


Q ss_pred             hhH
Q psy1174         166 MDA  168 (182)
Q Consensus       166 ~~~  168 (182)
                      .+.
T Consensus       130 ~~~  132 (218)
T 4djt_A          130 KNR  132 (218)
T ss_dssp             C--
T ss_pred             ccc
Confidence            653

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.23  E-value=2.1e-12  Score=100.91  Aligned_cols=115  Identities=13%  Similarity=0.065  Sum_probs=68.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .+...+|+++|++|+|||||+++|.+....   .....  ++...+.. .+ ..                          
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~---~~~~~--t~~~~~~~-~~-~~--------------------------   68 (207)
T 2fv8_A           22 SMIRKKLVVVGDGACGKTCLLIVFSKDEFP---EVYVP--TVFENYVA-DI-EV--------------------------   68 (207)
T ss_dssp             GSEEEEEEEEECTTSSHHHHHHHHHHSSCC------------CCEEEE-EE-EE--------------------------
T ss_pred             cccCcEEEEECcCCCCHHHHHHHHhcCCCC---CcCCC--cccceEEE-EE-EE--------------------------
Confidence            345678999999999999999999864321   00000  11000000 00 00                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccccccccchh------hHHHHhHhccchhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTPEIVDCPGH------DILMATMLNGAAVM  166 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~qt~e~l~~------~il~~~~~nk~d~~  166 (182)
                      .      .....+.++||||+.+|.......+..+|++|+|+|+.+.. +.......+..      .+....++||+|+.
T Consensus        69 ~------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  142 (207)
T 2fv8_A           69 D------GKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLR  142 (207)
T ss_dssp             T------TEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGG
T ss_pred             C------CEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhh
Confidence            0      01257899999999988876677788999999999998741 11110111111      12334669999987


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       143 ~  143 (207)
T 2fv8_A          143 S  143 (207)
T ss_dssp             G
T ss_pred             c
Confidence            5

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.23  E-value=1.5e-12  Score=101.57  Aligned_cols=117  Identities=12%  Similarity=0.050  Sum_probs=69.5

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      |......+|+++|++|+|||||+++|.+.....   .  ...|+...+. ..+ ..                        
T Consensus         4 m~~~~~~ki~i~G~~~~GKTsli~~l~~~~~~~---~--~~~t~~~~~~-~~~-~~------------------------   52 (212)
T 2j0v_A            4 MSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPT---D--YIPTVFDNFS-ANV-AV------------------------   52 (212)
T ss_dssp             CSCCCEEEEEEEESTTSSHHHHHHHHHHSCCCS---S--CCCSSCCCEE-EEE-EC------------------------
T ss_pred             CCcCceEEEEEECCCCCCHHHHHHHHhcCCCCc---c--CCCccceeEE-EEE-EE------------------------
Confidence            455667899999999999999999998532110   0  0001100000 000 00                        


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-ccch---h---hHHHHhHhccch
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DCPG---H---DILMATMLNGAA  164 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~l~---~---~il~~~~~nk~d  164 (182)
                        .      .....+.++||||+.+|.......+..+|++|+|+|+.+..-..... ..+.   .   .+....++||+|
T Consensus        53 --~------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  124 (212)
T 2j0v_A           53 --D------GQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLD  124 (212)
T ss_dssp             --S------SCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHH
T ss_pred             --C------CEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHH
Confidence              0      11257999999999998877777789999999999998751010111 1110   0   123346699999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       125 l~~  127 (212)
T 2j0v_A          125 LRD  127 (212)
T ss_dssp             HHT
T ss_pred             hhh
Confidence            865

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.23  E-value=5.1e-13  Score=102.54  Aligned_cols=80  Identities=14%  Similarity=0.089  Sum_probs=50.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ...++|+++|+.|+|||||+++|.+............+.+.                                    .+ 
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~------------------------------------~~-   88 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAA------------------------------------DY-   88 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------------------------------------------CC-
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceee------------------------------------ee-
Confidence            34568999999999999999999864321000000000000                                    00 


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhcc----ccCCeEEEEEEcC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGA----AVMDAALLLIGCD  138 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~----~~aD~ailVVda~  138 (182)
                             ....+.++||||+..|...+...+    ..+|++|+|+|+.
T Consensus        89 -------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~  129 (193)
T 2ged_A           89 -------DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDST  129 (193)
T ss_dssp             -------CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETT
T ss_pred             -------cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECC
Confidence                   115689999999976643333333    4489999999998

>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=99.22  E-value=9.7e-12  Score=94.76  Aligned_cols=112  Identities=12%  Similarity=0.067  Sum_probs=63.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +...|+++|++|+|||||+++|.+.....  .....+.+.+.....+.                                
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~--~~~~~~~t~~~~~~~~~--------------------------------   48 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAI--VTDIAGTTRDVLREHIH--------------------------------   48 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSC--CCSSTTCCCSCEEEEEE--------------------------------
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcce--eeCCCCceeceeeEEEE--------------------------------
Confidence            34679999999999999999998642110  00011111111000000                                


Q ss_pred             CCCcccccceEEEeeCCChhHH----H----HHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDIL----M----ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATML  160 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f----~----~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~  160 (182)
                           ..+..+.++||||..++    .    ......+..+|++++|+|+.+. ...+..+.+..       .++...++
T Consensus        49 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~-~s~~~~~~~~~~~~~~~~~~p~ilv~  122 (172)
T 2gj8_A           49 -----IDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTT-DAVDPAEIWPEFIARLPAKLPITVVR  122 (172)
T ss_dssp             -----ETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTC-CCCSHHHHCHHHHHHSCTTCCEEEEE
T ss_pred             -----ECCeEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCC-CCHHHHHHHHHHHHhcccCCCEEEEE
Confidence                 01256899999998532    1    1223457889999999999876 32222221111       12234568


Q ss_pred             ccchhhh
Q psy1174         161 NGAAVMD  167 (182)
Q Consensus       161 nk~d~~~  167 (182)
                      ||+|+.+
T Consensus       123 NK~Dl~~  129 (172)
T 2gj8_A          123 NKADITG  129 (172)
T ss_dssp             ECHHHHC
T ss_pred             ECccCCc
Confidence            9999754

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.22  E-value=2.9e-12  Score=104.90  Aligned_cols=25  Identities=32%  Similarity=0.255  Sum_probs=22.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++|+++|++|+|||||+++|++.
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            4678999999999999999999964

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.21  E-value=8e-13  Score=104.55  Aligned_cols=114  Identities=13%  Similarity=0.098  Sum_probs=67.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|++++|||||+++|.+.....   +...  ++...+....+ ..                          .
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~---~~~~--t~~~~~~~~~~-~~--------------------------~   58 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNEFNM---DSKS--TIGVEFATRTL-EI--------------------------E   58 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCCCCC-----------CCSEEEEEE-EE--------------------------T
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCCCCC---CCCC--cccceeEEEEE-EE--------------------------C
Confidence            345789999999999999999998543210   0001  11111100000 00                          0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccchh-------hHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPGH-------DILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~~-------~il~~~~~nk~d~~  166 (182)
                            .....+.++||||+..|.......+..+|++|+|+|+.++. ..+. .+.+..       .+..+.++||+|+.
T Consensus        59 ------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~-s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~  131 (223)
T 3cpj_B           59 ------GKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSS-SYENCNHWLSELRENADDNVAVGLIGNKSDLA  131 (223)
T ss_dssp             ------TEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHH-HHHHHHHHHHHHHHHCC--CEEEEEECCGGGG
T ss_pred             ------CEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHH-HHHHHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence                  01157899999999998877777789999999999998752 1111 111111       12234568999986


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       132 ~  132 (223)
T 3cpj_B          132 H  132 (223)
T ss_dssp             G
T ss_pred             c
Confidence            4

>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=99.21  E-value=1.1e-11  Score=102.77  Aligned_cols=63  Identities=11%  Similarity=0.135  Sum_probs=42.2

Q ss_pred             ceEEEeeCCChhH-------------HHHHHHhccccCCeEEEEEEc-CCCccccccc-ccchh----hHHHHhHhccch
Q psy1174         104 RHVSFVDCPGHDI-------------LMATMLNGAAVMDAALLLIGC-DNAAKTPEIV-DCPGH----DILMATMLNGAA  164 (182)
Q Consensus       104 ~~i~lIDtPGh~~-------------f~~~~~~~~~~aD~ailVVda-~~g~~~~qt~-e~l~~----~il~~~~~nk~d  164 (182)
                      .++.|+||||+.+             +.......+..+|++++|+|+ ..+ ...+.. +.+..    ......++||+|
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~-~~~~~~~~i~~~~~~~~~~~i~v~NK~D  209 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTD-LANSDALQLAKEVDPEGKRTIGVITKLD  209 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSC-STTCSHHHHHHHHCSSCSSEEEEEECTT
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcc-hhhhHHHHHHHHhCCCCCcEEEEEcCcc
Confidence            6799999999753             556667778999999999997 445 443332 22211    122345699999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       210 l~~  212 (315)
T 1jwy_B          210 LMD  212 (315)
T ss_dssp             SSC
T ss_pred             cCC
Confidence            764

>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=98.84  E-value=1.3e-12  Score=101.52  Aligned_cols=115  Identities=13%  Similarity=0.030  Sum_probs=71.1

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .+...+|+++|++|+|||||+++|.+....   .+ ... |+...+. ..                         ...  
T Consensus        27 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~---~~-~~~-t~~~~~~-~~-------------------------~~~--   73 (204)
T 3th5_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFP---GE-YIP-TVFDNYS-AN-------------------------VMV--   73 (204)
Confidence            356688999999999999999999843211   00 000 1100000 00                         000  


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-c---cch-h--hHHHHhHhccchhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-D---CPG-H--DILMATMLNGAAVM  166 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e---~l~-~--~il~~~~~nk~d~~  166 (182)
                      .      .....+.++||||+.+|.......+..+|++++|+|+.++.-..... .   .+. +  .+....++||+|+.
T Consensus        74 ~------~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~  147 (204)
T 3th5_A           74 D------GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLR  147 (204)
Confidence            0      01156779999999999887777889999999999998752111111 1   111 1  34566789999987


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       148 ~  148 (204)
T 3th5_A          148 D  148 (204)
Confidence            5

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.20  E-value=3.5e-12  Score=95.72  Aligned_cols=113  Identities=10%  Similarity=-0.015  Sum_probs=59.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++|+|||||+++|.+.....  .....|.+.....  +.+                             . 
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~--~~~~~~~~~~~~~--~~~-----------------------------~-   48 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERD--LHEQLGEDVYERT--LTV-----------------------------D-   48 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-------CCCSSSSEEEEE--EEE-----------------------------T-
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCcc--ccCccccceeEEE--EEE-----------------------------C-
Confidence            45789999999999999999998643110  0000111110000  000                             0 


Q ss_pred             CCCcccccceEEEeeCCChhHH--HHHHHhccccCCeEEEEEEcCCCcccccccccc----h----hhHHHHhHhccchh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDIL--MATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----G----HDILMATMLNGAAV  165 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f--~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~----~~il~~~~~nk~d~  165 (182)
                           .....+.++||||+..+  ........+.+|++++|+|+.+..-.....+.+    .    ..++...++||+|+
T Consensus        49 -----~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl  123 (175)
T 2nzj_A           49 -----GEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADL  123 (175)
T ss_dssp             -----TEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTC
T ss_pred             -----CEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhh
Confidence                 01257899999999874  333334457899999999998641000111111    0    01233466999997


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      .+
T Consensus       124 ~~  125 (175)
T 2nzj_A          124 AR  125 (175)
T ss_dssp             TT
T ss_pred             cc
Confidence            64

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.20  E-value=3.7e-12  Score=100.26  Aligned_cols=113  Identities=12%  Similarity=0.007  Sum_probs=54.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|+.|+|||||+++|.+....   ..  ...|+...+.. . +..                          . 
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~~~~---~~--~~~t~~~~~~~-~-~~~--------------------------~-   78 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADGAFP---ES--YTPTVFERYMV-N-LQV--------------------------K-   78 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC------------CCCCCEEEEE-E-EEE--------------------------T-
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCC---CC--CCCccceeEEE-E-EEE--------------------------C-
Confidence            4578999999999999999999853210   00  00011110000 0 000                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-ccchh------hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DCPGH------DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~l~~------~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.+..-..... ..+..      .+....++||+|+..
T Consensus        79 -----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  152 (214)
T 2j1l_A           79 -----GKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRK  152 (214)
T ss_dssp             -----TEEEEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGS
T ss_pred             -----CEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhc
Confidence                 01257899999999999887777789999999999998751111111 11100      122345689999875

>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=99.20  E-value=7.9e-12  Score=96.77  Aligned_cols=91  Identities=13%  Similarity=0.009  Sum_probs=56.7

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      ...+...+|+++|..|+|||||++.|.+.....    ...+...........+                           
T Consensus        15 ~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~----~~~~~~~~~~~~~~~~---------------------------   63 (196)
T 3llu_A           15 YFQGSKPRILLMGLRRSGKSSIQKVVFHKMSPN----ETLFLESTNKIYKDDI---------------------------   63 (196)
T ss_dssp             -----CCEEEEEESTTSSHHHHHHHHHSCCCGG----GGGGCCCCCSCEEEEE---------------------------
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHHhcCCCc----ceeeeccccceeeeec---------------------------
Confidence            334566789999999999999999988643211    0011111000000000                           


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHH---HhccccCCeEEEEEEcCCC
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATM---LNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~---~~~~~~aD~ailVVda~~g  140 (182)
                        .     ......+.++||||+.+|...+   ...+..+|++|+|+|+.+.
T Consensus        64 --~-----~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~  108 (196)
T 3llu_A           64 --S-----NSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDD  108 (196)
T ss_dssp             --C-----CTTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSC
T ss_pred             --c-----CCCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCc
Confidence              0     0112679999999999987665   5677889999999999985

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.19  E-value=4.3e-12  Score=94.89  Aligned_cols=112  Identities=13%  Similarity=0.008  Sum_probs=57.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++|+|||||+++|.+......   .....+.......+.+                                 
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~~~~~~---~~~~~~~~~~~~~~~~---------------------------------   46 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGLQGDHA---HEMENSEDTYERRIMV---------------------------------   46 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC---------------CEEEEEEEE---------------------------------
T ss_pred             EEEEEECCCCCCHHHHHHHHHhccCccc---ccCCCcCCeeeEEEEE---------------------------------
Confidence            5799999999999999999985322100   0000111110000000                                 


Q ss_pred             CcccccceEEEeeCCChhHHHHHHH-hccccCCeEEEEEEcCCCc----ccccccccchh----hHHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATML-NGAAVMDAALLLIGCDNAA----KTPEIVDCPGH----DILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~-~~~~~aD~ailVVda~~g~----~~~qt~e~l~~----~il~~~~~nk~d~~~  167 (182)
                        ......+.++||||+.+|...+. ..+..+|++++|+|+.+..    ......+...+    .++...+.||+|+.+
T Consensus        47 --~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  123 (169)
T 3q85_A           47 --DKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLAR  123 (169)
T ss_dssp             --TTEEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGG
T ss_pred             --CCeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhh
Confidence              01126788999999998876333 3357799999999998741    11111111111    123345689999763

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.19  E-value=8.3e-12  Score=96.37  Aligned_cols=116  Identities=13%  Similarity=0.118  Sum_probs=65.5

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      |..++..+|+++|+.|+|||||+++|.+.....   +...  |....+.. . +..                        
T Consensus        23 ~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~---~~~~--t~~~~~~~-~-~~~------------------------   71 (196)
T 2atv_A           23 MAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIW---EYDP--TLESTYRH-Q-ATI------------------------   71 (196)
T ss_dssp             ----CCEEEEEECCTTSSHHHHHHHHHHSCCCS---CCCT--TCCEEEEE-E-EEE------------------------
T ss_pred             cCCCCceEEEEECCCCCCHHHHHHHHHhCCCCc---ccCC--CCCceEEE-E-EEE------------------------
Confidence            344566899999999999999999998532110   0000  01000000 0 000                        


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccchh----hHHHHhHhccc
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPGH----DILMATMLNGA  163 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~~----~il~~~~~nk~  163 (182)
                              ......+.++||||+.+ .......+..+|++++|+|+.+..-.....    +...+    .+....++||+
T Consensus        72 --------~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~  142 (196)
T 2atv_A           72 --------DDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKA  142 (196)
T ss_dssp             --------TTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECG
T ss_pred             --------CCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECc
Confidence                    01126789999999987 444556668899999999998741111111    11110    12234568999


Q ss_pred             hhhh
Q psy1174         164 AVMD  167 (182)
Q Consensus       164 d~~~  167 (182)
                      |+.+
T Consensus       143 Dl~~  146 (196)
T 2atv_A          143 DLDH  146 (196)
T ss_dssp             GGGG
T ss_pred             cccc
Confidence            9865

>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=99.19  E-value=1.8e-12  Score=114.79  Aligned_cols=112  Identities=15%  Similarity=0.031  Sum_probs=60.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++.....  .....+.|.+.....+.                                 
T Consensus       224 ~~kV~ivG~~nvGKSSLln~L~~~~~a~--v~~~~gtT~d~~~~~i~---------------------------------  268 (462)
T 3geh_A          224 GLKVAIVGRPNVGKSSLLNAWSQSDRAI--VTDLPGTTRDVVESQLV---------------------------------  268 (462)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHBSC--CSCCTTCCHHHHHHEEE---------------------------------
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCCccc--ccCCCCeeEEEEEEEEE---------------------------------
Confidence            3569999999999999999998631100  00011222221111000                                 


Q ss_pred             CCcccccceEEEeeCCChhHHHHH--------HHhccccCCeEEEEEEcCCCcccccccccchhh--HHHHhHhccchhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMAT--------MLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD--ILMATMLNGAAVM  166 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~--------~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~--il~~~~~nk~d~~  166 (182)
                          ..+..+.++||||+.++...        ....+..+|++++|+|+..+ ...+..+.+.+.  .....++||+|+.
T Consensus       269 ----~~g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~-~~~~~~~i~~~l~~~piivV~NK~Dl~  343 (462)
T 3geh_A          269 ----VGGIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATG-WTTGDQEIYEQVKHRPLILVMNKIDLV  343 (462)
T ss_dssp             ----ETTEEEEECC--------------------CCCCSCSEEEEEEETTTC-SCHHHHHHHHHHTTSCEEEEEECTTSS
T ss_pred             ----ECCEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCC-CCHHHHHHHHhccCCcEEEEEECCCCC
Confidence                01267999999998765432        23356889999999999987 544444333221  2334568999987


Q ss_pred             hH
Q psy1174         167 DA  168 (182)
Q Consensus       167 ~~  168 (182)
                      +.
T Consensus       344 ~~  345 (462)
T 3geh_A          344 EK  345 (462)
T ss_dssp             CG
T ss_pred             cc
Confidence            53

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.18  E-value=2e-12  Score=99.43  Aligned_cols=113  Identities=13%  Similarity=0.049  Sum_probs=68.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|+.|+|||||+++|.+.....   .  ...|+...+. .. +..                          . 
T Consensus        17 ~~~ki~v~G~~~~GKssli~~l~~~~~~~---~--~~~t~~~~~~-~~-~~~--------------------------~-   62 (194)
T 2atx_A           17 LMLKCVVVGDGAVGKTCLLMSYANDAFPE---E--YVPTVFDHYA-VS-VTV--------------------------G-   62 (194)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSSCCC---S--CCCSSCCCEE-EE-EES--------------------------S-
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCC---C--CCCcccceeE-EE-EEE--------------------------C-
Confidence            45789999999999999999998532110   0  0000000000 00 000                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-ccch----h--hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DCPG----H--DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~l~----~--~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++|+|+|+.+..-..... ..+.    +  .+....+.||+|+.+
T Consensus        63 -----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  136 (194)
T 2atx_A           63 -----GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRD  136 (194)
T ss_dssp             -----SCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTT
T ss_pred             -----CEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcc
Confidence                 01257899999999998877777788999999999998752111111 1111    1  123346799999865

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.18  E-value=2.2e-12  Score=109.11  Aligned_cols=110  Identities=13%  Similarity=0.110  Sum_probs=64.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+|+|++|+|||||+++|.+.....      ..-|+...+..+.                               
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~------~~pT~~~~~~~~~-------------------------------  205 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVT------TIPTIGFNVETVE-------------------------------  205 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEE------EEEETTEEEEEEE-------------------------------
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCC------cccccceEEEEEe-------------------------------
Confidence            345689999999999999999998533110      0001111111000                               


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccc---cccccchh----hHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTP---EIVDCPGH----DILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~---qt~e~l~~----~il~~~~~nk~d~~  166 (182)
                            .....+.|+||||+..|.......+..+|++|+|+|+.+.. +..   +..+.+.+    .+..+.++||+|+.
T Consensus       206 ------~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~  279 (329)
T 3o47_A          206 ------YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLP  279 (329)
T ss_dssp             ------ETTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST
T ss_pred             ------cCcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCC
Confidence                  11267999999999999887778889999999999997641 111   11111111    12334668999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       280 ~  280 (329)
T 3o47_A          280 N  280 (329)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.18  E-value=3.5e-12  Score=96.20  Aligned_cols=111  Identities=16%  Similarity=0.079  Sum_probs=61.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|.+....   .+...+.+.......+                             .    
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~---~~~~~~~t~~~~~~~~-----------------------------~----   46 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVY---IGNWPGVTVEKKEGEF-----------------------------E----   46 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSS---CC-----CCCCCEEEE-----------------------------E----
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCee---ccCCCCcceeeeEEEE-----------------------------E----
Confidence            467999999999999999999874311   0011122221111000                             0    


Q ss_pred             CCcccccceEEEeeCCChhHHH-----HHHHh-cc--ccCCeEEEEEEcCCCcc-cccccccchhhHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILM-----ATMLN-GA--AVMDAALLLIGCDNAAK-TPEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~-----~~~~~-~~--~~aD~ailVVda~~g~~-~~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                          .....+.++||||+.+|.     ..+.. .+  ..+|++++|+|+..... .....+...+........||+|+..
T Consensus        47 ----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  122 (165)
T 2wji_A           47 ----YNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALERNLYLTLQLMEMGANLLLALNKMDLAK  122 (165)
T ss_dssp             ----ETTEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCHHHHHHHHHHHHHTTCCEEEEEECHHHHH
T ss_pred             ----ECCcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCchhHhHHHHHHHHhcCCCEEEEEEchHhcc
Confidence                012679999999987653     11111 11  37899999999986310 0000111111233446689999764

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.17  E-value=2.3e-11  Score=91.87  Aligned_cols=117  Identities=12%  Similarity=0.036  Sum_probs=65.1

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      |+++...+|+++|++|+|||||+++|.+....   ..  ...|+...+..                          ....
T Consensus         3 ~~~~~~~ki~v~G~~~~GKssl~~~~~~~~~~---~~--~~~t~~~~~~~--------------------------~~~~   51 (182)
T 3bwd_D            3 MSASRFIKCVTVGDGAVGKTCLLISYTSNTFP---TD--YVPTVFDNFSA--------------------------NVVV   51 (182)
T ss_dssp             ----CCCEEEEECSTTSSHHHHHHHHHHSCCC---------------CBC--------------------------CCC-
T ss_pred             CCCCceEEEEEECCCCCCHHHHHHHHhcCCCC---CC--CCCeeeeeEEE--------------------------EEEE
Confidence            44566789999999999999999999853211   00  00011110100                          0000


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-cc---chh---hHHHHhHhccch
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DC---PGH---DILMATMLNGAA  164 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~---l~~---~il~~~~~nk~d  164 (182)
                        .      .....+.++||||+.+|.......+..+|++++|+|+.+..-..... ..   +..   .+....++||+|
T Consensus        52 --~------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  123 (182)
T 3bwd_D           52 --N------GATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLD  123 (182)
T ss_dssp             --------------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHH
T ss_pred             --C------CEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechh
Confidence              0      11256789999999998877777788999999999998751100111 11   111   123346689999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       124 l~~  126 (182)
T 3bwd_D          124 LRD  126 (182)
T ss_dssp             HHT
T ss_pred             hhc
Confidence            865

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.17  E-value=3.9e-12  Score=97.01  Aligned_cols=113  Identities=16%  Similarity=0.078  Sum_probs=62.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|+.|+|||||+++|.+...   ..+...+++.+.....+.                                
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~---~~~~~~~~t~~~~~~~~~--------------------------------   50 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENV---YIGNWPGVTVEKKEGEFE--------------------------------   50 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCE---EEEECTTSCCEEEEEEEE--------------------------------
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCc---cccCCCCeeccceEEEEE--------------------------------
Confidence            457899999999999999999987421   001112222221111000                                


Q ss_pred             CCCcccccceEEEeeCCChhHHH-----HHHHh-cc--ccCCeEEEEEEcCCCc-ccccccccchhhHHHHhHhccchhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILM-----ATMLN-GA--AVMDAALLLIGCDNAA-KTPEIVDCPGHDILMATMLNGAAVM  166 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~-----~~~~~-~~--~~aD~ailVVda~~g~-~~~qt~e~l~~~il~~~~~nk~d~~  166 (182)
                           .....+.++||||+.+|.     ..+.. .+  ..+|++++|+|+.... ......+..........+.||+|+.
T Consensus        51 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  125 (188)
T 2wjg_A           51 -----YNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALERNLYLTLQLMEMGANLLLALNKMDLA  125 (188)
T ss_dssp             -----ETTEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGGHHHHHHHHHHHHTTTCCEEEEEECHHHH
T ss_pred             -----eCCcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchhHHHHHHHHHHHHhcCCCEEEEEEhhhcc
Confidence                 012679999999987662     11111 11  3589999999997521 0000011111122334558999986


Q ss_pred             hH
Q psy1174         167 DA  168 (182)
Q Consensus       167 ~~  168 (182)
                      ..
T Consensus       126 ~~  127 (188)
T 2wjg_A          126 KS  127 (188)
T ss_dssp             HH
T ss_pred             cc
Confidence            53

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.16  E-value=2.4e-11  Score=99.71  Aligned_cols=27  Identities=19%  Similarity=0.192  Sum_probs=22.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ....+|+++|++|+|||||+++|.+..
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~   32 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTD   32 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSC
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCC
Confidence            345789999999999999999998643

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.16  E-value=3.4e-11  Score=100.71  Aligned_cols=112  Identities=13%  Similarity=0.183  Sum_probs=70.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|.+|+|||||+++|.+....  ......+.|+...+....+                                
T Consensus         3 ~~KI~lvG~~~vGKSSLi~~l~~~~~~--~~~~~~~~Ti~~~~~~~~~--------------------------------   48 (307)
T 3r7w_A            3 GSKLLLMGRSGSGKSSMRSIIFSNYSA--FDTRRLGATIDVEHSHLRF--------------------------------   48 (307)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHSCCCT--GGGGGCCCCCSEEEEEEEE--------------------------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCC--ccccCcCCccceEEEEEEe--------------------------------
Confidence            357999999999999999999864211  1122345555544422111                                


Q ss_pred             CCcccccceEEEeeCCChhHHHHHH-----HhccccCCeEEEEEEcCCCcccccccc----cchh------hHHHHhHhc
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATM-----LNGAAVMDAALLLIGCDNAAKTPEIVD----CPGH------DILMATMLN  161 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~-----~~~~~~aD~ailVVda~~g~~~~qt~e----~l~~------~il~~~~~n  161 (182)
                          ....++.++||||+.+|....     ...+..+|++|+|+|+.+. ...+..+    .+..      .+....++|
T Consensus        49 ----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~-~s~~~l~~~~~~l~~l~~~~~~~piilv~N  123 (307)
T 3r7w_A           49 ----LGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVEST-EVLKDIEIFAKALKQLRKYSPDAKIFVLLH  123 (307)
T ss_dssp             ----TTTEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCS-CHHHHHHHHHHHHHHHHHHCTTCEEEEEEE
T ss_pred             ----CCceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCCh-hhHHHHHHHHHHHHHHHHhCCCCeEEEEEe
Confidence                012689999999999985433     3334789999999999986 2111111    0101      233446689


Q ss_pred             cchhhh
Q psy1174         162 GAAVMD  167 (182)
Q Consensus       162 k~d~~~  167 (182)
                      |+|+.+
T Consensus       124 K~Dl~~  129 (307)
T 3r7w_A          124 KMDLVQ  129 (307)
T ss_dssp             CGGGSC
T ss_pred             cccccc
Confidence            999875

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.15  E-value=9e-12  Score=96.25  Aligned_cols=115  Identities=12%  Similarity=0.011  Sum_probs=65.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ..+..+|+++|+.|+|||||+++|.+....   ..  ...|+...+. .. +..                          
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~~~~~---~~--~~~t~~~~~~-~~-~~~--------------------------   63 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTTNGYP---TE--YIPTAFDNFS-AV-VSV--------------------------   63 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC-------------CCSSEEEE-EE-EEE--------------------------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCC---CC--CCCcccceeE-EE-EEE--------------------------
Confidence            345678999999999999999999863210   00  0001110000 00 000                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc-ccchh------hHHHHhHhccchhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV-DCPGH------DILMATMLNGAAVM  166 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~-e~l~~------~il~~~~~nk~d~~  166 (182)
                      .      .....+.++||||+.+|.......+..+|++|+|+|+.+..-..... ..+..      .+....+.||+|+.
T Consensus        64 ~------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~  137 (201)
T 2q3h_A           64 D------GRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLR  137 (201)
T ss_dssp             T------TEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGG
T ss_pred             C------CEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhh
Confidence            0      01146789999999988776666778999999999998752111111 11100      12334568999986


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       138 ~  138 (201)
T 2q3h_A          138 E  138 (201)
T ss_dssp             G
T ss_pred             h
Confidence            5

>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=99.15  E-value=8.2e-11  Score=91.80  Aligned_cols=86  Identities=16%  Similarity=0.173  Sum_probs=54.6

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ++...+|+++|++|+|||||+++|++.....      ...++...+..   +..                          
T Consensus         4 ~~~~~ki~vvG~~~~GKTsli~~l~~~~~~~------~~~~~~~~~~~---~~~--------------------------   48 (214)
T 2fh5_B            4 KSSQRAVLFVGLCDSGKTLLFVRLLTGQYRD------TQTSITDSSAI---YKV--------------------------   48 (214)
T ss_dssp             ----CEEEEECSTTSSHHHHHHHHHHSCCCC------BCCCCSCEEEE---EEC--------------------------
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCccc------ccCCcceeeEE---EEe--------------------------
Confidence            3456789999999999999999998532110      00111111100   000                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHH-HHhccccCCeEEEEEEcCC
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMAT-MLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~-~~~~~~~aD~ailVVda~~  139 (182)
                      .+     .....+.++||||+.+|... .......+|++|+|+|+..
T Consensus        49 ~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~   90 (214)
T 2fh5_B           49 NN-----NRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAA   90 (214)
T ss_dssp             SS-----TTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTT
T ss_pred             cC-----CCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCC
Confidence            00     00267999999999999874 4445788999999999986

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.14  E-value=7e-12  Score=96.54  Aligned_cols=90  Identities=13%  Similarity=0.127  Sum_probs=52.1

Q ss_pred             ccccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCc
Q psy1174          11 WVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFP   90 (182)
Q Consensus        11 ~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (182)
                      ..++....+|+++|..|+|||||+++|++.....   .  ...|+...+.. . +..                       
T Consensus        15 ~~~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~---~--~~~t~~~~~~~-~-~~~-----------------------   64 (187)
T 3c5c_A           15 YFQGPLEVNLAILGRRGAGKSALTVKFLTKRFIS---E--YDPNLEDTYSS-E-ETV-----------------------   64 (187)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHHHHHHSSCCS---C--CCTTCCEEEEE-E-EEE-----------------------
T ss_pred             HhCCCceEEEEEECCCCCcHHHHHHHHHhCCCCc---c--cCCCccceeeE-E-EEE-----------------------
Confidence            3445566889999999999999999998532110   0  00011110000 0 000                       


Q ss_pred             ccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          91 CLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        91 ~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                               ......+.++||||+.+|.. +...+..+|++++|+|+.+.
T Consensus        65 ---------~~~~~~l~i~Dt~G~~~~~~-~~~~~~~~~~~ilv~d~~~~  104 (187)
T 3c5c_A           65 ---------DHQPVHLRVMDTADLDTPRN-CERYLNWAHAFLVVYSVDSR  104 (187)
T ss_dssp             ---------TTEEEEEEEEECCC---CCC-THHHHTTCSEEEEEEETTCH
T ss_pred             ---------CCEEEEEEEEECCCCCcchh-HHHHHhhCCEEEEEEECCCH
Confidence                     01126788999999987764 34566889999999999864

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.13  E-value=6.2e-12  Score=98.98  Aligned_cols=113  Identities=12%  Similarity=0.033  Sum_probs=68.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh-cCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS-GVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~-g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      ....+|+++|..|+|||||+++|+ +.....  .....|.+......  .   .                          
T Consensus        13 ~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~--~~~t~~~~~~~~~~--~---~--------------------------   59 (221)
T 3gj0_A           13 QVQFKLVLVGDGGTGKTTFVKRHLTGEFEKK--YVATLGVEVHPLVF--H---T--------------------------   59 (221)
T ss_dssp             CCEEEEEEEECTTSSHHHHHTTBHHHHHTCE--EETTTTEEEEEEEE--E---E--------------------------
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCC--CCCccceeEEEEEE--E---E--------------------------
Confidence            455789999999999999999965 311100  00011222221110  0   0                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-cccchh------hHHHHhHhccchhh
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCPGH------DILMATMLNGAAVM  166 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l~~------~il~~~~~nk~d~~  166 (182)
                            ......+.++||||+..|.......+..+|++|+|+|+.++ ...+. ...+..      .+....++||+|+.
T Consensus        60 ------~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~  132 (221)
T 3gj0_A           60 ------NRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSR-VTYKNVPNWHRDLVRVCENIPIVLCGNKVDIK  132 (221)
T ss_dssp             ------TTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCH-HHHHTHHHHHHHHHHHSTTCCEEEEEECTTSS
T ss_pred             ------CCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCH-HHHHHHHHHHHHHHHhCCCCCEEEEEECCccc
Confidence                  01126799999999998877666677899999999999976 21111 111100      12334568999976


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       133 ~  133 (221)
T 3gj0_A          133 D  133 (221)
T ss_dssp             S
T ss_pred             c
Confidence            4

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.12  E-value=1e-10  Score=89.40  Aligned_cols=88  Identities=15%  Similarity=0.051  Sum_probs=48.8

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .++..+|+++|+.|+|||||+++|++.......    .. +....+..  .+..                          
T Consensus        18 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~----~~-t~~~~~~~--~~~~--------------------------   64 (190)
T 3con_A           18 GMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEY----DP-TIEDSYRK--QVVI--------------------------   64 (190)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCC----CT-TCCEEEEE--EEEE--------------------------
T ss_pred             ccceeEEEEECcCCCCHHHHHHHHHcCCCcccc----CC-ccceEEEE--EEEE--------------------------
Confidence            345578999999999999999999853211000    00 00000000  0000                          


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .      .....+.++||||+.+|.......+..+|++++|+|+.+.
T Consensus        65 ~------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  105 (190)
T 3con_A           65 D------GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNS  105 (190)
T ss_dssp             T------TEEEEEEEEECCC-----------CTTCSEEEEEEETTCH
T ss_pred             C------CEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCH
Confidence            0      1125689999999999988888888999999999999875

>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=99.12  E-value=2.2e-11  Score=96.70  Aligned_cols=109  Identities=15%  Similarity=0.057  Sum_probs=62.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+++|.+|+|||||+++|++....   .....+.|.......                                   
T Consensus        29 ~~kI~vvG~~~vGKSsLin~l~~~~~~---~~~~~~~t~~~~~~~-----------------------------------   70 (228)
T 2qu8_A           29 KKTIILSGAPNVGKSSFMNIVSRANVD---VQSYSFTTKNLYVGH-----------------------------------   70 (228)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHTTTCEE---EECC-----CEEEEE-----------------------------------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCc---cCCCCCcceeeeeee-----------------------------------
Confidence            468999999999999999999864211   000011111111000                                   


Q ss_pred             CCcccccceEEEeeCCCh------hH----HHHHHHhccccCCeEEEEEEcCCCccccccc---ccchh------hHHHH
Q psy1174          97 TGRFQLVRHVSFVDCPGH------DI----LMATMLNGAAVMDAALLLIGCDNAAKTPEIV---DCPGH------DILMA  157 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh------~~----f~~~~~~~~~~aD~ailVVda~~g~~~~qt~---e~l~~------~il~~  157 (182)
                        .......+.++||||+      ..    +. .+......+|++|+|+|+.+. ..-...   +.+..      .+...
T Consensus        71 --~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~-~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~l~~~~~~~pii  146 (228)
T 2qu8_A           71 --FDHKLNKYQIIDTPGLLDRAFENRNTIEMT-TITALAHINGVILFIIDISEQ-CGLTIKEQINLFYSIKSVFSNKSIV  146 (228)
T ss_dssp             --EEETTEEEEEEECTTTTTSCGGGCCHHHHH-HHHHHHTSSEEEEEEEETTCT-TSSCHHHHHHHHHHHHTCC-CCCEE
T ss_pred             --eecCCCeEEEEECCCCcCcccchhhhHHHH-HHHHhhccccEEEEEEecccc-cCcchHHHHHHHHHHHHhhcCCcEE
Confidence              0001267999999999      33    22 223335778999999999876 221111   11110      23344


Q ss_pred             hHhccchhhh
Q psy1174         158 TMLNGAAVMD  167 (182)
Q Consensus       158 ~~~nk~d~~~  167 (182)
                      .++||+|+.+
T Consensus       147 lv~nK~Dl~~  156 (228)
T 2qu8_A          147 IGFNKIDKCN  156 (228)
T ss_dssp             EEEECGGGCC
T ss_pred             EEEeCcccCC
Confidence            6699999864

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.12  E-value=2e-11  Score=96.25  Aligned_cols=114  Identities=11%  Similarity=0.023  Sum_probs=68.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|..|+|||||+++|++.....   .  ...|+...+.. .+ ..                           
T Consensus        25 ~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~---~--~~~t~~~~~~~-~~-~~---------------------------   70 (214)
T 3q3j_B           25 VARCKLVLVGDVQCGKTAMLQVLAKDCYPE---T--YVPTVFENYTA-CL-ET---------------------------   70 (214)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCCS---S--CCCCSEEEEEE-EE-EC---------------------------
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCC---C--cCCeeeeeEEE-EE-EE---------------------------
Confidence            456789999999999999999998532110   0  00011111100 00 00                           


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccc-ccccchh------hHHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPE-IVDCPGH------DILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~q-t~e~l~~------~il~~~~~nk~d~~~  167 (182)
                           ......+.++||||+.+|.......+..+|++|+|+|+.+..-... ....+..      .+....+.||+|+.+
T Consensus        71 -----~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  145 (214)
T 3q3j_B           71 -----EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRT  145 (214)
T ss_dssp             -------CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGG
T ss_pred             -----CCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcc
Confidence                 0112678999999999998777777899999999999997621111 1111110      122345689999864

>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=99.11  E-value=2.2e-11  Score=106.52  Aligned_cols=112  Identities=15%  Similarity=0.087  Sum_probs=63.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ..++|+++|++|+|||||+++|+|.....  .....|.|.+.....+                             .+. 
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~--v~~~~gtT~d~~~~~i-----------------------------~~~-  226 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERAL--VSPIPGTTRDPVDDEV-----------------------------FID-  226 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEE--ECCCC------CCEEE-----------------------------EET-
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccc--cCCCCCCcCCceEEEE-----------------------------EEC-
Confidence            34689999999999999999999753110  0011222222111100                             111 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHH------------HHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhH
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMAT------------MLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATM  159 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~------------~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~  159 (182)
                             +..+.++||||...+...            ....+..+|++++|+|+..+ ...+......+.    ...+..
T Consensus       227 -------g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~-~~~~~~~i~~~l~~~~~~~ilv  298 (439)
T 1mky_A          227 -------GRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQG-ITRQDQRMAGLMERRGRASVVV  298 (439)
T ss_dssp             -------TEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTC-CCHHHHHHHHHHHHTTCEEEEE
T ss_pred             -------CEEEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCC-CCHHHHHHHHHHHHcCCCEEEE
Confidence                   267899999998554321            23456789999999999987 544432222111    123356


Q ss_pred             hccchhhh
Q psy1174         160 LNGAAVMD  167 (182)
Q Consensus       160 ~nk~d~~~  167 (182)
                      +||+|+.+
T Consensus       299 ~NK~Dl~~  306 (439)
T 1mky_A          299 FNKWDLVV  306 (439)
T ss_dssp             EECGGGST
T ss_pred             EECccCCC
Confidence            89999764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.10  E-value=4.2e-11  Score=91.44  Aligned_cols=87  Identities=13%  Similarity=0.085  Sum_probs=58.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +..+|+++|++++|||||+++|.+.....   +....+........+.+                               
T Consensus        14 ~~~~i~v~G~~~~GKssli~~l~~~~~~~---~~~~t~~~~~~~~~~~~-------------------------------   59 (195)
T 1x3s_A           14 TTLKILIIGESGVGKSSLLLRFTDDTFDP---ELAATIGVDFKVKTISV-------------------------------   59 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCT---TCCCCCSEEEEEEEEEE-------------------------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCc---cCCCccceEEEEEEEEE-------------------------------
Confidence            45789999999999999999998543110   00011111111100000                               


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ......+.++||||+.+|.......+..+|++|+|+|+.+.
T Consensus        60 ----~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~  100 (195)
T 1x3s_A           60 ----DGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRR  100 (195)
T ss_dssp             ----TTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCH
T ss_pred             ----CCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCH
Confidence                01126789999999999887777788999999999999875

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.08  E-value=1.1e-10  Score=95.88  Aligned_cols=63  Identities=10%  Similarity=0.133  Sum_probs=41.5

Q ss_pred             ceEEEeeCCChh-------------HHHHHHHhccccCCeEE-EEEEcCCCccccccc-ccchh----hHHHHhHhccch
Q psy1174         104 RHVSFVDCPGHD-------------ILMATMLNGAAVMDAAL-LLIGCDNAAKTPEIV-DCPGH----DILMATMLNGAA  164 (182)
Q Consensus       104 ~~i~lIDtPGh~-------------~f~~~~~~~~~~aD~ai-lVVda~~g~~~~qt~-e~l~~----~il~~~~~nk~d  164 (182)
                      .++.|+||||+.             .+...+...+..+|.++ +|+|+..+ ...+.. ..+..    ......++||+|
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~-~~~~~~~~~~~~~~~~~~~~i~V~NK~D  203 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSD-LANSDALKIAKEVDPQGQRTIGVITKLD  203 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSC-GGGCHHHHHHHHHCTTCSSEEEEEECGG
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcc-hhhhHHHHHHHHhCCCCCeEEEEEEccc
Confidence            579999999963             45555556677888776 68999987 554432 22211    122346699999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       204 l~~  206 (299)
T 2aka_B          204 LMD  206 (299)
T ss_dssp             GSC
T ss_pred             cCC
Confidence            864

>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=99.07  E-value=6.1e-12  Score=111.88  Aligned_cols=110  Identities=14%  Similarity=0.048  Sum_probs=66.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++|+|||||+++|++....  ......+.|.+.....+                             .     
T Consensus       244 ~kV~ivG~pnvGKSSLln~L~~~~~a--~vs~~~gTT~d~~~~~i-----------------------------~-----  287 (482)
T 1xzp_A          244 LRMVIVGKPNVGKSTLLNRLLNEDRA--IVTDIPGTTRDVISEEI-----------------------------V-----  287 (482)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBC--CCCCSSCCSSCSCCEEE-----------------------------E-----
T ss_pred             CEEEEECcCCCcHHHHHHHHHCCCCC--ccCCCCCeeeeeEEEEE-----------------------------e-----
Confidence            67999999999999999999863210  00001122221111000                             0     


Q ss_pred             CcccccceEEEeeCCChh-HHH--------HHHHhccccCCeEEEEEEcCCCcccccccccchh--hHHHHhHhccchhh
Q psy1174          98 GRFQLVRHVSFVDCPGHD-ILM--------ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH--DILMATMLNGAAVM  166 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~-~f~--------~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~--~il~~~~~nk~d~~  166 (182)
                         ..+..+.++||||+. .+.        ......+..+|++|+|+|+.++ ...+..+.+..  ......++||+|+.
T Consensus       288 ---~~g~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~-~s~~~~~il~~l~~~piivV~NK~DL~  363 (482)
T 1xzp_A          288 ---IRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSP-LDEEDRKILERIKNKRYLVVINKVDVV  363 (482)
T ss_dssp             ---ETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSC-CCHHHHHHHHHHTTSSEEEEEEECSSC
T ss_pred             ---cCCeEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEEEecCCCC-CCHHHHHHHHHhcCCCEEEEEECcccc
Confidence               112679999999987 442        2345677899999999999887 43333332211  12234668999975


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       364 ~  364 (482)
T 1xzp_A          364 E  364 (482)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.05  E-value=1.2e-11  Score=102.27  Aligned_cols=110  Identities=16%  Similarity=0.148  Sum_probs=62.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|++....   .....|.|+......                             ..    
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~---v~~~pg~tv~~~~~~-----------------------------~~----   46 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQR---VGNWPGVTVERKSGL-----------------------------VK----   46 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCC---CCSSSCCCCSCEEEE-----------------------------CT----
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCc---ccCCCCCcEEEEEEE-----------------------------Ee----
Confidence            357999999999999999999974210   000122222211100                             00    


Q ss_pred             CCcccccceEEEeeCCChhHHHH-----HHHh-cc--ccCCeEEEEEEcCCCccc-ccccccchhhHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMA-----TMLN-GA--AVMDAALLLIGCDNAAKT-PEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~-----~~~~-~~--~~aD~ailVVda~~g~~~-~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                          . ...+.++||||+..|..     .+.+ .+  ..+|++++|+|+...... ..+.+.....++....+||+|+..
T Consensus        47 ----~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e~~~~~~~~l~~~~~p~ilv~NK~Dl~~  121 (272)
T 3b1v_A           47 ----K-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNLERNLYLTTQLIETGIPVTIALNMIDVLD  121 (272)
T ss_dssp             ----T-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHHHHHHHHHHTCSCEEEEEECHHHHH
T ss_pred             ----c-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCchHhHHHHHHHHHhcCCCEEEEEEChhhCC
Confidence                0 25799999999876631     1111 11  369999999999863100 000111111233445689999865

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.05  E-value=1.9e-10  Score=87.82  Aligned_cols=113  Identities=12%  Similarity=0.022  Sum_probs=68.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|++|+|||||+++|.+.....   .  ...|+...+.. .+ ..                           
T Consensus         5 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~---~--~~~t~~~~~~~-~~-~~---------------------------   50 (184)
T 1m7b_A            5 NVKCKIVVVGDSQCGKTALLHVFAKDCFPE---N--YVPTVFENYTA-SF-EI---------------------------   50 (184)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCS---S--CCCCSEEEEEE-EE-EC---------------------------
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHhcCCCCC---C--CCCccceeEEE-EE-EE---------------------------
Confidence            345789999999999999999998532110   0  00011111100 00 00                           


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc--ccc---ch---hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI--VDC---PG---HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt--~e~---l~---~~il~~~~~nk~d~~  166 (182)
                           ......+.++||||+..|.......+..+|++|+|+|+.+.. .-+.  ...   +.   ..++...+.||+|+.
T Consensus        51 -----~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~  124 (184)
T 1m7b_A           51 -----DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPE-TLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLR  124 (184)
T ss_dssp             -----SSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHH-HHHHHHHTHHHHHHHHCTTCEEEEEEECGGGG
T ss_pred             -----CCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHH-HHHHHHHHHHHHHHHHCCCCCEEEEEEcchhh
Confidence                 001267899999999998876667779999999999998751 1111  111   00   012334568999987


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       125 ~  125 (184)
T 1m7b_A          125 T  125 (184)
T ss_dssp             G
T ss_pred             c
Confidence            4

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.04  E-value=1.2e-10  Score=107.60  Aligned_cols=63  Identities=14%  Similarity=0.115  Sum_probs=42.7

Q ss_pred             ceEEEeeCCChhHH---HHHHHhccccCCeEEEEEEcCCCcccccccccchh-----hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDIL---MATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-----DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f---~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-----~il~~~~~nk~d~~~  167 (182)
                      ..+.++||||..+.   ...+...+..+|++|+|+|+..+ ......+.+..     ....+.++||+|..+
T Consensus       174 ~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~-~s~~e~~~l~~~l~~~~~~iiiVlNK~Dl~~  244 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQP-CTLGERRYLENYIKGRGLTVFFLVNAWDQVR  244 (695)
T ss_dssp             TTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTST-TCHHHHHHHHHHTTTSCCCEEEEEECGGGGG
T ss_pred             CCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCc-cchhHHHHHHHHHHhhCCCEEEEEECccccc
Confidence            36999999998663   34455667889999999999887 44333332211     122346699999864

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.00  E-value=3.6e-10  Score=88.60  Aligned_cols=92  Identities=14%  Similarity=0.108  Sum_probs=57.4

Q ss_pred             ccccc--CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCC
Q psy1174          10 NWVSN--EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDD   87 (182)
Q Consensus        10 ~~~~~--~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (182)
                      .+|..  ....+|+++|..|+|||||+++|.+.....   .  ...|+...+. ..+ ..+                   
T Consensus        19 ~~m~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~---~--~~~t~~~~~~-~~~-~~~-------------------   72 (205)
T 1gwn_A           19 SHMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPE---N--YVPTVFENYT-ASF-EID-------------------   72 (205)
T ss_dssp             --------CEEEEEEEESTTSSHHHHHHHHHHSCCCS---S--CCCCSEEEEE-EEE-ESS-------------------
T ss_pred             CCCCcccceeeEEEEECCCCCCHHHHHHHHhcCCCCC---C--cCCccceeEE-EEE-EEC-------------------
Confidence            34542  345789999999999999999998532110   0  0011111110 000 000                   


Q ss_pred             CCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          88 SFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                                   .....+.++||||+.+|.......+..+|++|+|+|+.+.
T Consensus        73 -------------~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~  112 (205)
T 1gwn_A           73 -------------TQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP  112 (205)
T ss_dssp             -------------SSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCH
T ss_pred             -------------CEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCH
Confidence                         0126789999999999877666677899999999999875

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.00  E-value=4.1e-10  Score=87.32  Aligned_cols=112  Identities=13%  Similarity=0.027  Sum_probs=67.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|++|+|||||+++|.+.....   .  ...|+...+.. . +..                             
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~~~~---~--~~~t~~~~~~~-~-~~~-----------------------------   68 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKDQFPE---V--YVPTVFENYIA-D-IEV-----------------------------   68 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCS---S--CCCSSCCCCEE-E-EEE-----------------------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCcCCc---c--cCCcccceEEE-E-EEE-----------------------------
Confidence            4689999999999999999998532110   0  00000000000 0 000                             


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-ccccccccc---hh---hHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-KTPEIVDCP---GH---DILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-~~~qt~e~l---~~---~il~~~~~nk~d~~~  167 (182)
                         ......+.++||||+.+|.......+..+|++++|+|+.+.. +.......+   ..   .+....++||+|+.+
T Consensus        69 ---~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  143 (201)
T 2gco_A           69 ---DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQ  143 (201)
T ss_dssp             ---TTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTT
T ss_pred             ---CCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhc
Confidence               011257899999999999877777789999999999998741 111101111   11   123346689999865

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=98.97  E-value=1e-09  Score=84.25  Aligned_cols=85  Identities=16%  Similarity=0.069  Sum_probs=53.8

Q ss_pred             ccccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCc
Q psy1174          11 WVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFP   90 (182)
Q Consensus        11 ~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (182)
                      ...+++..+|+++|..|+|||||+++|++.........     |.......+.+                          
T Consensus        14 ~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~-----t~~~~~~~~~~--------------------------   62 (184)
T 3ihw_A           14 LYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESP-----EGGRFKKEIVV--------------------------   62 (184)
T ss_dssp             --CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCT-----TCEEEEEEEEE--------------------------
T ss_pred             CCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCC-----CcceEEEEEEE--------------------------
Confidence            34456778999999999999999999985321100000     00000000000                          


Q ss_pred             ccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          91 CLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        91 ~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .      .....+.++||||+..|.     .+..+|++++|+|+.+.
T Consensus        63 ---~------~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~   98 (184)
T 3ihw_A           63 ---D------GQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDE   98 (184)
T ss_dssp             ---T------TEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCH
T ss_pred             ---C------CEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcCH
Confidence               0      011567889999998877     45678999999999975

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=98.95  E-value=3.1e-10  Score=93.88  Aligned_cols=112  Identities=11%  Similarity=-0.032  Sum_probs=67.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|.+|+|||||+++|.+......    ... |+...+.. .+ ..                          . 
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~----~~~-t~~~~~~~-~~-~~--------------------------~-  199 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGE----YIP-TVFDNYSA-NV-MV--------------------------D-  199 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCS----CCC-CSEEEEEE-EE-EE--------------------------T-
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcc----cCC-cccceeEE-EE-EE--------------------------C-
Confidence            457899999999999999999984321100    000 11111100 00 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccc-c-cc---ch-h--hHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEI-V-DC---PG-H--DILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt-~-e~---l~-~--~il~~~~~nk~d~~~  167 (182)
                           .....+.++||||+.+|.......+..+|++++|+|+.+. ...+. . ..   +. +  .+....+.||+|+.+
T Consensus       200 -----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  273 (332)
T 2wkq_A          200 -----GKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP-ASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRD  273 (332)
T ss_dssp             -----TEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCH-HHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHT
T ss_pred             -----CEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCH-HHHHHHHHHHHHHHHhhCCCCcEEEEEEchhccc
Confidence                 0114577999999999987777778999999999999875 21111 1 10   00 0  123346699999864

>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=98.95  E-value=6.9e-10  Score=94.14  Aligned_cols=60  Identities=12%  Similarity=0.032  Sum_probs=37.8

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                      +.+.|+||||+.++...+   ...+|++++|+|+..+ ...+....-...+....++||+|..+
T Consensus       149 ~~i~liDTpG~~~~~~~~---~~~aD~vl~Vvd~~~~-~~~~~l~~~~~~~p~ivv~NK~Dl~~  208 (341)
T 2p67_A          149 YDVVIVETVGVGQSETEV---ARMVDCFISLQIAGGG-DDLQGIKKGLMEVADLIVINKDDGDN  208 (341)
T ss_dssp             CSEEEEEEECCTTHHHHH---HTTCSEEEEEECC-------CCCCHHHHHHCSEEEECCCCTTC
T ss_pred             CCEEEEeCCCccchHHHH---HHhCCEEEEEEeCCcc-HHHHHHHHhhhcccCEEEEECCCCCC
Confidence            789999999987766543   5899999999999876 33222210001123446799999865

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=98.95  E-value=3.6e-10  Score=85.80  Aligned_cols=23  Identities=26%  Similarity=0.276  Sum_probs=20.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+|+++|++|+|||||+++|.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCc
Confidence            47999999999999999999864

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.93  E-value=1.1e-09  Score=94.72  Aligned_cols=83  Identities=14%  Similarity=0.168  Sum_probs=56.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|.+|+|||||+|+|++....   .....+.|.+.....+.                                  
T Consensus        73 a~V~ivG~PNvGKSTL~n~Lt~~~~~---v~~~pftT~~~~~g~~~----------------------------------  115 (376)
T 4a9a_A           73 ASVGFVGFPSVGKSTLLSKLTGTESE---AAEYEFTTLVTVPGVIR----------------------------------  115 (376)
T ss_dssp             EEEEEECCCCHHHHHHHHHHHSBCCC---GGGTCSSCCCEEEEEEE----------------------------------
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCc---ccCCCCceeeeeeEEEE----------------------------------
Confidence            47999999999999999999974321   11112333332221111                                  


Q ss_pred             CcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         ..+.++.|+||||..       ......+..++.+|++++|||+.++
T Consensus       116 ---~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD~~~p  162 (376)
T 4a9a_A          116 ---YKGAKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILDVNKP  162 (376)
T ss_dssp             ---ETTEEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEETTSH
T ss_pred             ---eCCcEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccccccccCcc
Confidence               112789999999973       2344567778999999999999875

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=98.93  E-value=2.7e-10  Score=97.17  Aligned_cols=36  Identities=19%  Similarity=0.186  Sum_probs=28.7

Q ss_pred             ceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCC
Q psy1174         104 RHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       104 ~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      ..+.++||||+..       +.....+.+..+|++|+|||+..
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~  248 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSG  248 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSC
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCc
Confidence            5799999999744       44555666778999999999975

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=98.92  E-value=1.3e-09  Score=82.06  Aligned_cols=84  Identities=14%  Similarity=0.107  Sum_probs=52.7

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      |.+.+..+|+++|..|+|||||+++|.+......      ..|+...+.  ..+..                        
T Consensus         2 m~~~~~~ki~~vG~~~vGKTsli~~l~~~~~~~~------~~t~~~~~~--~~~~~------------------------   49 (178)
T 2iwr_A            2 MRSIPELRLGVLGDARSGKSSLIHRFLTGSYQVL------EKTESEQYK--KEMLV------------------------   49 (178)
T ss_dssp             CCCCCEEEEEEECCGGGCHHHHHHHHHHSCCCCC------SSCSSSEEE--EEEEE------------------------
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHHhCCCCCc------CCCcceeEE--EEEEE------------------------
Confidence            3445678899999999999999999985321100      001100000  00000                        


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        .      .....+.+.||||+.++     ..+..+|++|+|+|+.+.
T Consensus        50 --~------~~~~~l~i~Dt~G~~~~-----~~~~~~d~~ilv~D~~~~   85 (178)
T 2iwr_A           50 --D------GQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDE   85 (178)
T ss_dssp             --T------TEEEEEEEEECSSSCCH-----HHHHHCSEEEEEEETTCH
T ss_pred             --C------CEEEEEEEEECCCCchh-----HHHHhCCEEEEEEECcCH
Confidence              0      01256889999999763     234669999999999875

>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=98.91  E-value=8.2e-10  Score=93.97  Aligned_cols=64  Identities=14%  Similarity=0.127  Sum_probs=40.1

Q ss_pred             ceEEEeeCCChhHH-------------HHHHHhccccCCeEEEEEEcCCCcccccc-cccc----hhhHHHHhHhccchh
Q psy1174         104 RHVSFVDCPGHDIL-------------MATMLNGAAVMDAALLLIGCDNAAKTPEI-VDCP----GHDILMATMLNGAAV  165 (182)
Q Consensus       104 ~~i~lIDtPGh~~f-------------~~~~~~~~~~aD~ailVVda~~g~~~~qt-~e~l----~~~il~~~~~nk~d~  165 (182)
                      ..+.++||||..++             ...+...+..+|++|+|||+..-....+. .+.+    ........++||+|+
T Consensus       136 ~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nK~Dl  215 (360)
T 3t34_A          136 VNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDRTFGVLTKIDL  215 (360)
T ss_dssp             CSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEEEEEECGGG
T ss_pred             CCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEEEEEeCCcc
Confidence            46999999998665             44455667899999999987532122111 1111    111234456999998


Q ss_pred             hh
Q psy1174         166 MD  167 (182)
Q Consensus       166 ~~  167 (182)
                      ++
T Consensus       216 ~~  217 (360)
T 3t34_A          216 MD  217 (360)
T ss_dssp             CC
T ss_pred             CC
Confidence            75

>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=98.90  E-value=4.8e-10  Score=87.01  Aligned_cols=30  Identities=13%  Similarity=0.262  Sum_probs=24.3

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.+...|+++|++|+|||||+++|++..
T Consensus        21 ~~~~~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           21 LPSDTGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            334455689999999999999999998743

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=98.90  E-value=2.1e-10  Score=102.58  Aligned_cols=123  Identities=14%  Similarity=0.038  Sum_probs=65.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|.+|+|||||+++|++....   .  ....|+...+.....          |.   ....    .....  
T Consensus        39 ~~~~kV~lvG~~~vGKSSLl~~l~~~~~~---~--~~~~t~g~~~~~~~~----------~~---~~~v----~~~~~--   94 (535)
T 3dpu_A           39 LQEIKVHLIGDGMAGKTSLLKQLIGETFD---P--KESQTHGLNVVTKQA----------PN---IKGL----ENDDE--   94 (535)
T ss_dssp             CCEEEEEEESSSCSSHHHHHHHHHC----------------CCCEEEEEG----------GG---SGGG----TTCST--
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhcCCCC---C--CCCCccceEEEEecc----------cc---ccce----eecCC--
Confidence            44578999999999999999999964311   0  011111111100000          00   0000    00000  


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccc-cccccchhh--HHHHhHhccchhhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTP-EIVDCPGHD--ILMATMLNGAAVMD  167 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~-qt~e~l~~~--il~~~~~nk~d~~~  167 (182)
                            .....+.++||||+..|.......+..+|++|+|+|+..+.... ...+...+.  .......||+|+.+
T Consensus        95 ------~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~~~~~~~~~~l~~~~~~~pvilV~NK~Dl~~  164 (535)
T 3dpu_A           95 ------LKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTDSNKHYWLRHIEKYGGKSPVIVVMNKIDENP  164 (535)
T ss_dssp             ------TTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGGGGHHHHHHHHHHHSSSCCEEEEECCTTTCT
T ss_pred             ------CceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCchhHHHHHHHHHHhCCCCCEEEEEECCCccc
Confidence                  11278999999998887765555567899999999998651000 000100011  23345689999764

>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=98.88  E-value=1.9e-09  Score=93.55  Aligned_cols=37  Identities=16%  Similarity=0.148  Sum_probs=24.4

Q ss_pred             ceEEEeeCCChhHH-------HHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDIL-------MATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f-------~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.|+||||+.+.       .......++.+|++++|+|+.++
T Consensus        71 ~~i~lvDtpG~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             EEEEEEECC---------------CCCSSTTCSEEEEEEETTCC
T ss_pred             EEEEEEECCCcccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            57999999998542       12223456899999999999875

>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=98.87  E-value=5.3e-09  Score=89.07  Aligned_cols=61  Identities=13%  Similarity=0.032  Sum_probs=38.7

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHHHhHhccchhhh
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~~~~~nk~d~~~  167 (182)
                      ...+.||||||...-.   ...+..+|++++|+|+..+ ...+.....-..+....++||+|...
T Consensus       171 ~~~~iiiDTpGi~~~~---~~~~~~aD~vl~V~d~~~~-~~~~~l~~~~~~~p~ivVlNK~Dl~~  231 (355)
T 3p32_A          171 GFDVILIETVGVGQSE---VAVANMVDTFVLLTLARTG-DQLQGIKKGVLELADIVVVNKADGEH  231 (355)
T ss_dssp             TCCEEEEEECSCSSHH---HHHHTTCSEEEEEEESSTT-CTTTTCCTTSGGGCSEEEEECCCGGG
T ss_pred             CCCEEEEeCCCCCcHH---HHHHHhCCEEEEEECCCCC-ccHHHHHHhHhhcCCEEEEECCCCcC
Confidence            3789999999964422   2234889999999999876 22222110001124456699999874

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=98.86  E-value=1.9e-09  Score=83.64  Aligned_cols=88  Identities=14%  Similarity=-0.023  Sum_probs=53.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ....+|+++|.+|+|||||+++|.+..... .  ...+.+.+.....+.+                             .
T Consensus        21 ~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~-~--~~~~~~~~~~~~~~~~-----------------------------~   68 (195)
T 3cbq_A           21 DGIFKVMLVGESGVGKSTLAGTFGGLQGDS-A--HEPENPEDTYERRIMV-----------------------------D   68 (195)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHTCCEECCG-G--GTTTSCTTEEEEEEEE-----------------------------T
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhccCCc-c--CCCCcccceEEEEEEE-----------------------------C
Confidence            345789999999999999999997532110 0  0111111110000000                             0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHH-HHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMAT-MLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~-~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.+.||||...+... ....+..+|++|+|+|+.+.
T Consensus        69 ------~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~  109 (195)
T 3cbq_A           69 ------KEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDR  109 (195)
T ss_dssp             ------TEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             ------CEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCH
Confidence                  01256788899999876542 33345779999999999864

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=98.84  E-value=8.4e-10  Score=88.09  Aligned_cols=87  Identities=13%  Similarity=0.101  Sum_probs=55.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +...|+++|..++|||||+.+++...-   ..+  ...|+...+....+ ..                          . 
T Consensus        12 k~~KivlvGd~~VGKTsLi~r~~~~~f---~~~--~~~Tig~d~~~k~~-~~--------------------------~-   58 (216)
T 4dkx_A           12 RKFKLVFLGEQSVGKTSLITRFMYDSF---DNT--YQATIGIDFLSKTM-YL--------------------------E-   58 (216)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHSCC---C------------CEEEEE-EC--------------------------S-
T ss_pred             CcEEEEEECcCCcCHHHHHHHHHhCCC---CCC--cCCccceEEEEEEE-Ee--------------------------c-
Confidence            346799999999999999999984221   111  11122222211110 00                          0 


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ....++.+.||+|.++|....-...+.+|++++|.|....
T Consensus        59 -----~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~   98 (216)
T 4dkx_A           59 -----DRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNV   98 (216)
T ss_dssp             -----SCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCH
T ss_pred             -----ceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchh
Confidence                 1125788999999999987777778999999999999874

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.84  E-value=4e-09  Score=91.71  Aligned_cols=102  Identities=19%  Similarity=0.170  Sum_probs=48.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ....|+++|.+|+|||||+++|++...   ......+.|+......+.+   ....    ..+.           +.  .
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~---~~~~~p~tTi~p~~g~v~v---~~~r----~~~l-----------~~--~   77 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQA---SAENFPFCTIDPNESRVPV---PDER----FDFL-----------CQ--Y   77 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC----------------CCSEEEEEC---CCHH----HHHH-----------HH--H
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCc---cccCCCccccCceeEEEEE---CCcc----ceee-----------cc--c
Confidence            346799999999999999999997421   1111122232221111110   0000    0000           00  0


Q ss_pred             CCCcccccceEEEeeCCChhHHHH-------HHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMA-------TMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~-------~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..........+.++||||...+..       .....++.+|++++|||+.+.
T Consensus        78 ~~p~~~~~~~i~lvDtpGl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~~  129 (396)
T 2ohf_A           78 HKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFED  129 (396)
T ss_dssp             HCCSEEECCEEEEEECCC-----------CCHHHHHHHTSSSEEEEEEC---
T ss_pred             cCcccccccccEEEECCCcccccchhhHHHHHHHHHHHhcCeEEEEEecCCC
Confidence            000000114699999999876554       345667899999999999853

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.84  E-value=1.9e-09  Score=91.79  Aligned_cols=25  Identities=32%  Similarity=0.308  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ....|+++|++|+|||||+++|.+.
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999874

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=98.84  E-value=9.1e-09  Score=88.29  Aligned_cols=82  Identities=23%  Similarity=0.339  Sum_probs=51.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|++|+|||||+++|++...   ..+...+.|.+.....+.+                             .   
T Consensus       180 ~~V~lvG~~naGKSTLln~L~~~~~---~~~~~~~~T~d~~~~~i~~-----------------------------~---  224 (364)
T 2qtf_A          180 PSIGIVGYTNSGKTSLFNSLTGLTQ---KVDTKLFTTMSPKRYAIPI-----------------------------N---  224 (364)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHCC--------------CCSCEEEEEE-----------------------------T---
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCCc---cccCCcccccCCEEEEEEE-----------------------------C---
Confidence            3499999999999999999997432   1111122222211111110                             1   


Q ss_pred             CcccccceEEEeeCCCh---------hHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGH---------DILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh---------~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           +..+.++||||+         +.|. .+...+..+|++++|+|+..+
T Consensus       225 -----g~~v~l~DT~G~i~~lp~~lve~f~-~tl~~~~~aD~il~VvD~s~~  270 (364)
T 2qtf_A          225 -----NRKIMLVDTVGFIRGIPPQIVDAFF-VTLSEAKYSDALILVIDSTFS  270 (364)
T ss_dssp             -----TEEEEEEECCCBCSSCCGGGHHHHH-HHHHGGGGSSEEEEEEETTSC
T ss_pred             -----CEEEEEEeCCCchhcCCHHHHHHHH-HHHHHHHhCCEEEEEEECCCC
Confidence                 157899999997         3343 345678999999999999876

>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=98.83  E-value=2.4e-09  Score=91.03  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..+.|+|+|.+|+|||||+++|+|.
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~   54 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGR   54 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTS
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCC
Confidence            3457999999999999999999974

>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=98.78  E-value=4.2e-09  Score=81.46  Aligned_cols=86  Identities=14%  Similarity=0.077  Sum_probs=53.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..+|+++|+.|+|||||+++|.+.....   +....+........+.+                             .+ 
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~~~~---~~~~t~~~~~~~~~i~~-----------------------------~g-   51 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNEFNL---ESKSTIGVEFATRSIQV-----------------------------DG-   51 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCC------CCCSCEEEEEEEEE-----------------------------TT-
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCCCCC---CCCCccceeEEEEEEEE-----------------------------CC-
Confidence            4679999999999999999998743210   00010001110000000                             00 


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ....+.+.||||+..|..........+|++++|+|..+.
T Consensus        52 -----~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   90 (199)
T 2f9l_A           52 -----KTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKH   90 (199)
T ss_dssp             -----EEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCH
T ss_pred             -----EEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCH
Confidence                 114578899999988765444445778999999999875

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.78  E-value=6.7e-09  Score=88.49  Aligned_cols=58  Identities=9%  Similarity=-0.021  Sum_probs=33.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc--ccchhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV--DCPGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~--e~l~~~il~~~~~nk~d~~~  167 (182)
                      ..+.|+||||...-..   .....+|++++|+|+..| ...+..  ..+.  .....++||+|..+
T Consensus       167 ~~~iliDT~Gi~~~~~---~l~~~~d~vl~V~d~~~~-~~~~~i~~~il~--~~~ivVlNK~Dl~~  226 (349)
T 2www_A          167 YDIILIETVGVGQSEF---AVADMVDMFVLLLPPAGG-DELQGIKRGIIE--MADLVAVTKSDGDL  226 (349)
T ss_dssp             CSEEEEECCCC--CHH---HHHTTCSEEEEEECCC-------------CC--SCSEEEECCCSGGG
T ss_pred             CCEEEEECCCcchhhh---hHHhhCCEEEEEEcCCcc-hhHHHhHHHHHh--cCCEEEEeeecCCC
Confidence            6799999999642222   224689999999999876 322211  1111  12345589999864

>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=98.76  E-value=2.5e-09  Score=91.56  Aligned_cols=26  Identities=19%  Similarity=0.188  Sum_probs=22.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ....+|+|+|++|+|||||+++|.+.
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTC
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCC
Confidence            34568999999999999999999764

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=98.75  E-value=5e-09  Score=97.74  Aligned_cols=63  Identities=11%  Similarity=0.095  Sum_probs=40.3

Q ss_pred             ceEEEeeCCChhH-------------HHHHHHhcc-ccCCeEEEEEEcCCCccccccc-ccchh----hHHHHhHhccch
Q psy1174         104 RHVSFVDCPGHDI-------------LMATMLNGA-AVMDAALLLIGCDNAAKTPEIV-DCPGH----DILMATMLNGAA  164 (182)
Q Consensus       104 ~~i~lIDtPGh~~-------------f~~~~~~~~-~~aD~ailVVda~~g~~~~qt~-e~l~~----~il~~~~~nk~d  164 (182)
                      .+++|+||||...             +...+...+ ..+|++++|||+..+ +..+.. +.+..    .......+||+|
T Consensus       150 ~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~-~~~~d~l~ll~~L~~~g~pvIlVlNKiD  228 (772)
T 3zvr_A          150 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSD-LANSDALKIAKEVDPQGQRTIGVITKLD  228 (772)
T ss_dssp             CSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSC-SSSCHHHHHHHHHCTTCSSEEEEEECTT
T ss_pred             CceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCC-cchhHHHHHHHHHHhcCCCEEEEEeCcc
Confidence            4689999999532             222233333 578999999999987 555443 22211    123446699999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      .++
T Consensus       229 lv~  231 (772)
T 3zvr_A          229 LMD  231 (772)
T ss_dssp             SSC
T ss_pred             cCC
Confidence            875

>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=98.75  E-value=7.2e-09  Score=89.14  Aligned_cols=37  Identities=22%  Similarity=0.236  Sum_probs=28.6

Q ss_pred             ceEEEeeCCChhHHHHH-------HHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMAT-------MLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~-------~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||...+...       ....++.+|++++|+|+.+.
T Consensus        66 ~~i~lvDtpGl~~~a~~~~gl~~~fl~~ir~ad~il~VvD~~~~  109 (363)
T 1jal_A           66 TTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFEN  109 (363)
T ss_dssp             CEEEEEECCSCCTTHHHHGGGTCCHHHHHHTCSEEEEEEECSCC
T ss_pred             eEEEEEECCCCcccccccchHHHHHHHHHHhcCeEEEEEecCCC
Confidence            57999999998765432       23346889999999999874

>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=98.74  E-value=1.2e-08  Score=77.95  Aligned_cols=37  Identities=11%  Similarity=0.025  Sum_probs=30.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||.+.|.......+..+|++++|+|..++
T Consensus        56 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   92 (184)
T 2zej_A           56 LVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKG   92 (184)
T ss_dssp             CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGC
T ss_pred             eEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcc
Confidence            6789999999998876544455778999999999876

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.58  E-value=2.6e-08  Score=88.96  Aligned_cols=62  Identities=15%  Similarity=0.140  Sum_probs=38.0

Q ss_pred             ceEEEeeCCChh----HHHHHHHhcc--ccCCeEEEEEEcCCCccccc-ccccchhhHH-HHhHhccchhh
Q psy1174         104 RHVSFVDCPGHD----ILMATMLNGA--AVMDAALLLIGCDNAAKTPE-IVDCPGHDIL-MATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~----~f~~~~~~~~--~~aD~ailVVda~~g~~~~q-t~e~l~~~il-~~~~~nk~d~~  166 (182)
                      +.+.||||||..    .+..++....  ..+|.+++||||..| .... ..+.++..+. ...++||.|..
T Consensus       184 ~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g-~~~~~~a~~~~~~~~i~gvVlNK~D~~  253 (504)
T 2j37_W          184 FEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIG-QACEAQAKAFKDKVDVASVIVTKLDGH  253 (504)
T ss_dssp             CCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCC-TTHHHHHHHHHHHHCCCCEEEECTTSC
T ss_pred             CcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEecccc-ccHHHHHHHHHhhcCceEEEEeCCccc
Confidence            679999999975    4444433222  378999999999988 3210 0111111122 24668999965

>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=98.58  E-value=1.1e-07  Score=81.77  Aligned_cols=37  Identities=24%  Similarity=0.227  Sum_probs=29.3

Q ss_pred             ceEEEeeCCChhHH-------HHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDIL-------MATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f-------~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||...+       .......++.+|++++|+|+.+.
T Consensus        69 ~~i~lvDtpGl~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~  112 (368)
T 2dby_A           69 THVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPD  112 (368)
T ss_dssp             CEEEEEECCSCCCCCCSSSCTTHHHHHHHHTCSEEEEEEECCCC
T ss_pred             ceEEEEECCCccccccccchHHHHHHHHHHhCCEEEEEEECCCC
Confidence            57999999998653       23455667899999999999864

>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=98.56  E-value=1.9e-08  Score=77.48  Aligned_cols=86  Identities=15%  Similarity=0.077  Sum_probs=52.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ...|+++|+.|+|||||+++|.+.....   .....+........+.+                             .+ 
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~~~~---~~~~t~~~~~~~~~i~~-----------------------------~g-   75 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNEFNL---ESKSTIGVEFATRSIQV-----------------------------DG-   75 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCC---SCCCCCSEEEEEEEEEE-----------------------------TT-
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCCCCC---CCCCccceEEEEEEEEE-----------------------------CC-
Confidence            3679999999999999999998643210   00010111110000000                             00 


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ....+.+.||||..+|...+......+|++++|+|..+.
T Consensus        76 -----~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~  114 (191)
T 1oix_A           76 -----KTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKH  114 (191)
T ss_dssp             -----EEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCH
T ss_pred             -----EEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCH
Confidence                 013466799999987765444455678999999998764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.53  E-value=1.1e-07  Score=80.51  Aligned_cols=59  Identities=17%  Similarity=0.019  Sum_probs=33.9

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccc-ccccchhhHHHHhHhccchhh
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPE-IVDCPGHDILMATMLNGAAVM  166 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~q-t~e~l~~~il~~~~~nk~d~~  166 (182)
                      +..+.||||||...-..   .....+|++++|+|+..+ ...+ .++.+ ..++....+||+|+.
T Consensus       147 ~~~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~-~~~~~i~~~i-~~~~~ivvlNK~Dl~  206 (337)
T 2qm8_A          147 GFDVILVETVGVGQSET---AVADLTDFFLVLMLPGAG-DELQGIKKGI-FELADMIAVNKADDG  206 (337)
T ss_dssp             TCCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC-------CCTTH-HHHCSEEEEECCSTT
T ss_pred             CCCEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCc-ccHHHHHHHH-hccccEEEEEchhcc
Confidence            37899999999753221   123688999999998755 2211 11101 012223447999954

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.51  E-value=2.9e-08  Score=77.65  Aligned_cols=25  Identities=12%  Similarity=0.215  Sum_probs=22.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++|+++|++|+|||||+++|++
T Consensus        28 ~~~~~i~i~G~~g~GKTTl~~~l~~   52 (221)
T 2wsm_A           28 SGTVAVNIMGAIGSGKTLLIERTIE   52 (221)
T ss_dssp             HTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            4567899999999999999999985

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=98.47  E-value=5.7e-09  Score=84.72  Aligned_cols=26  Identities=15%  Similarity=0.101  Sum_probs=23.1

Q ss_pred             cCCCcceEEECCC---------CCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHV---------AHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~---------~sGKSTLl~~L~g   39 (182)
                      .....+|+++|.+         |+|||||+++|++
T Consensus        16 ~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~   50 (255)
T 3c5h_A           16 FQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVR   50 (255)
T ss_dssp             CCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHC
T ss_pred             CCceeEEEEECCCccccccCCCCcCHHHHHHHHHh
Confidence            3456789999999         9999999999996

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=98.44  E-value=9.5e-07  Score=69.85  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=22.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ....+|+++|.+|+|||||+++|.+.
T Consensus        35 ~~~~kVvlvG~~~vGKSSLl~r~~~~   60 (211)
T 2g3y_A           35 NTYYRVVLIGEQGVGKSTLANIFAGV   60 (211)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34568999999999999999999863

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=98.39  E-value=3.5e-07  Score=79.34  Aligned_cols=36  Identities=17%  Similarity=0.217  Sum_probs=27.2

Q ss_pred             ceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCC
Q psy1174         104 RHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       104 ~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      ..+.++|+||...       +.......++.+|+++.|+|+.+
T Consensus        85 ~~i~lvD~pGl~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           85 AFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             EEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cceEEEeccccccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            4689999999532       33345566788999999999976

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=98.33  E-value=3.4e-07  Score=70.55  Aligned_cols=24  Identities=29%  Similarity=0.286  Sum_probs=21.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....|+++|.+|+|||||+++|.+
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999999985

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=98.31  E-value=5.3e-07  Score=72.24  Aligned_cols=62  Identities=11%  Similarity=0.140  Sum_probs=37.7

Q ss_pred             ceEEEeeCCChhHHHH------HHHhccccCCeEEEEEEcCCCcccccccc-cc--------hhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMA------TMLNGAAVMDAALLLIGCDNAAKTPEIVD-CP--------GHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~------~~~~~~~~aD~ailVVda~~g~~~~qt~e-~l--------~~~il~~~~~nk~d~~~  167 (182)
                      +.+.++||||..++..      .+...+.. +++++|||+... ....... ..        ...+....++||+|...
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~-~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEIL-KKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGC-CSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhh-cCHHHHHHHHHHHHHHhcccCCCeEEEEecccccc
Confidence            5799999999876542      23345566 889999998765 3322211 00        00112235689999764

>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=98.25  E-value=2.2e-07  Score=84.50  Aligned_cols=26  Identities=19%  Similarity=0.286  Sum_probs=22.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+..+|+|+|.+|+|||||+|+|+|.
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~   61 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGK   61 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCC
Confidence            34567999999999999999999974

>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=98.20  E-value=1.1e-06  Score=72.78  Aligned_cols=26  Identities=23%  Similarity=0.208  Sum_probs=22.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ...+|+++|.+|+|||||+|+|.+..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~  144 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKN  144 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCc
Confidence            34679999999999999999999753

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.13  E-value=8.3e-07  Score=77.53  Aligned_cols=25  Identities=20%  Similarity=0.205  Sum_probs=22.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++|+++|++|+|||||+++|.|..
T Consensus        31 sf~I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           31 EFTLMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHTTCC
T ss_pred             CEEEEEECCCCCcHHHHHHHHhCCC
Confidence            3568999999999999999999754

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=98.12  E-value=1.2e-06  Score=74.30  Aligned_cols=62  Identities=8%  Similarity=0.091  Sum_probs=41.0

Q ss_pred             ceEEEeeCCChhHHHH---HHHhccccCCeEEEEEEcCCCccccccccc----chh------hHHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHDILMA---TMLNGAAVMDAALLLIGCDNAAKTPEIVDC----PGH------DILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~---~~~~~~~~aD~ailVVda~~g~~~~qt~e~----l~~------~il~~~~~nk~d~~~  167 (182)
                      .++.+.||||+++|..   ......+.++++|+|+|+.+. ... ..+.    +..      .+....+.||+|+.+
T Consensus        46 v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~-~~~-~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~  120 (331)
T 3r7w_B           46 IDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDE-YIN-AITNLAMIIEYAYKVNPSINIEVLIHKVDGLS  120 (331)
T ss_dssp             SCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSC-TTH-HHHHHHHHHHHHHHHCTTCEEEEECCCCCSSC
T ss_pred             EEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCch-HHH-HHHHHHHHHHHHhhcCCCCcEEEEEECcccCc
Confidence            5689999999999853   233456889999999999875 211 1111    111      123346689999864

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.04  E-value=1.2e-06  Score=74.98  Aligned_cols=24  Identities=25%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++|+++|.+|+|||||+|+|++.
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~  185 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEE  185 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhh
Confidence            467999999999999999999863

>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=98.03  E-value=3e-06  Score=73.97  Aligned_cols=24  Identities=25%  Similarity=0.374  Sum_probs=21.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...|+++|++|+|||||+++|++.
T Consensus       157 g~~VgLVG~~gAGKSTLL~~Lsg~  180 (416)
T 1udx_A          157 IADVGLVGYPNAGKSSLLAAMTRA  180 (416)
T ss_dssp             SCSEEEECCGGGCHHHHHHHHCSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            346899999999999999999874

>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=98.02  E-value=1e-05  Score=70.79  Aligned_cols=62  Identities=15%  Similarity=0.151  Sum_probs=36.6

Q ss_pred             ceEEEeeCCChhH----HHHHHH--hccccCCeEEEEEEcCCCcccccc-cccchhhH-H-HHhHhccchhh
Q psy1174         104 RHVSFVDCPGHDI----LMATML--NGAAVMDAALLLIGCDNAAKTPEI-VDCPGHDI-L-MATMLNGAAVM  166 (182)
Q Consensus       104 ~~i~lIDtPGh~~----f~~~~~--~~~~~aD~ailVVda~~g~~~~qt-~e~l~~~i-l-~~~~~nk~d~~  166 (182)
                      +.+.+|||||...    +...+.  ..+..+|.+++|+||..| ..... .+.++..+ . ...++||.|..
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g-~~~~~~~~~~~~~~~~i~gvVlnK~D~~  251 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIG-QQAGIQAKAFKEAVGEIGSIIVTKLDGS  251 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGG-GGHHHHHHHHHTTSCSCEEEEEECSSSC
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeecccc-HHHHHHHHHHhhcccCCeEEEEeCCCCc
Confidence            6799999999743    444332  223468999999999887 31100 01111111 1 34568999864

>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=97.98  E-value=3.5e-06  Score=73.79  Aligned_cols=24  Identities=21%  Similarity=0.250  Sum_probs=21.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ++++|+|+.|+|||||+++|.|..
T Consensus        43 ~~vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           43 FNILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             EEEEEECSTTSSSHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCcc
Confidence            459999999999999999999863

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.98  E-value=2.4e-06  Score=73.20  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=21.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..+|+++|.+|+|||||+|+|++.
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~  183 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKE  183 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhh
Confidence            467999999999999999999863

>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=97.97  E-value=2.2e-06  Score=71.36  Aligned_cols=26  Identities=19%  Similarity=0.188  Sum_probs=21.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ....+|+++|+.|+|||||+++|.+.
T Consensus        16 ~~~~~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           16 GFEFTLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHC-
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHhCC
Confidence            34467899999999999999999874

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.88  E-value=6.1e-06  Score=67.51  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .+++++|.+|+|||||+++|.+..
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~  123 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKR  123 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTC
T ss_pred             hheEEeCCCCCCHHHHHHHHhccc
Confidence            579999999999999999999743

>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=97.88  E-value=9.3e-06  Score=71.23  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++..|+++|+.|+||||++..|.
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA  118 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLA  118 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999999987

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.52  E-value=0.0002  Score=62.88  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=20.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++..|+++|+.|+||||++..|.
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA  121 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLA  121 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHH
Confidence            45789999999999999999987

>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=97.43  E-value=4.4e-05  Score=67.18  Aligned_cols=26  Identities=15%  Similarity=0.101  Sum_probs=22.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+...|+|+|+.++|||||+|+|+|.
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhh
Confidence            34557899999999999999999863

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.42  E-value=0.00035  Score=61.12  Aligned_cols=24  Identities=21%  Similarity=0.178  Sum_probs=21.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .++.+|+++|+.|+||||++..|.
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA  121 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLG  121 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            456789999999999999999886

>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=97.37  E-value=0.00031  Score=58.33  Aligned_cols=37  Identities=24%  Similarity=0.222  Sum_probs=26.6

Q ss_pred             ceEEEeeCCChhH--HHHHHH------hccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDI--LMATML------NGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~--f~~~~~------~~~~~aD~ailVVda~~g  140 (182)
                      +.+.+|||||...  ....+.      ..+..+|.+++|+|+..|
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g  225 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG  225 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch
Confidence            6799999999765  222221      345578999999999865

>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=5.7e-05  Score=63.33  Aligned_cols=25  Identities=28%  Similarity=0.258  Sum_probs=21.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ...++++|++|+|||||+++|.|..
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            4568999999999999999998743

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.31  E-value=9.6e-05  Score=57.17  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=21.5

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+...|+|+|+.|||||||++.|.+
T Consensus         3 ~~~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            3 APKPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             --CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            34556799999999999999999976

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.29  E-value=0.00012  Score=56.52  Aligned_cols=30  Identities=17%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             cccccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          10 NWVSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        10 ~~~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+|...+...|+++|++|||||||++.|.+
T Consensus        22 ~~m~~~~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           22 SMMTGEPTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             ------CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             hhhcCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            445555667899999999999999999964

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.27  E-value=9.8e-05  Score=60.53  Aligned_cols=23  Identities=26%  Similarity=0.251  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+++++|+.|+|||||+++|.|.
T Consensus         3 f~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            3 FNIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            57999999999999999999874

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.18  E-value=0.00017  Score=55.94  Aligned_cols=23  Identities=26%  Similarity=0.190  Sum_probs=20.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++|+|++|+|||||++.|.+
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34689999999999999999986

>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=97.14  E-value=0.00024  Score=53.86  Aligned_cols=26  Identities=27%  Similarity=0.284  Sum_probs=22.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+...++++|++|||||||++.|.+.
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            34456899999999999999999864

>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=97.12  E-value=0.00027  Score=55.55  Aligned_cols=31  Identities=16%  Similarity=0.071  Sum_probs=23.2

Q ss_pred             ccccccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174           9 SNWVSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus         9 ~~~~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++|...+...|+++|++|+|||||+++|.+
T Consensus        11 ~~~~~~~~g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           11 RENLYFQGRKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             -----CCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cccCCCCCCCEEEEECcCCCCHHHHHHHHHh
Confidence            3556666667899999999999999999985

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.11  E-value=0.00054  Score=57.48  Aligned_cols=25  Identities=16%  Similarity=0.155  Sum_probs=21.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...|+++|+.|+||||++..|.+
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4456789999999999999998873

>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=97.06  E-value=0.00027  Score=54.27  Aligned_cols=22  Identities=32%  Similarity=0.234  Sum_probs=20.0

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +++++|+.|+|||||++.|.|.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999864

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.06  E-value=0.00031  Score=53.72  Aligned_cols=23  Identities=17%  Similarity=0.179  Sum_probs=20.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++++|++|||||||++.|.+.
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            45899999999999999999863

>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=97.04  E-value=0.00027  Score=54.92  Aligned_cols=25  Identities=32%  Similarity=0.244  Sum_probs=21.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|||||||+++|.|..
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3458999999999999999998743

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.04  E-value=0.00029  Score=54.72  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=21.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +...|+|+|++|||||||++.|.+.
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            4557999999999999999999753

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.03  E-value=0.00033  Score=53.30  Aligned_cols=23  Identities=9%  Similarity=0.092  Sum_probs=20.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..++++|++|||||||++.|.+.
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            46899999999999999999853

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.98  E-value=0.00039  Score=53.12  Aligned_cols=26  Identities=27%  Similarity=0.056  Sum_probs=22.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +...|+++|++|||||||++.|.+..
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            34568999999999999999998643

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.96  E-value=0.00037  Score=55.83  Aligned_cols=25  Identities=24%  Similarity=0.454  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|||||||++.|.|..
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3458999999999999999998754

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.91  E-value=0.00047  Score=54.28  Aligned_cols=25  Identities=20%  Similarity=0.078  Sum_probs=21.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +...++|+|++|||||||++.|.|.
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3446899999999999999999873

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.88  E-value=0.00044  Score=54.95  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.83  E-value=0.00058  Score=54.96  Aligned_cols=24  Identities=29%  Similarity=0.498  Sum_probs=21.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999999764

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.82  E-value=0.0006  Score=54.10  Aligned_cols=24  Identities=21%  Similarity=0.207  Sum_probs=21.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..++|+|+.|||||||+++|.+..
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            458999999999999999998743

>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=96.81  E-value=0.00058  Score=55.79  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            348999999999999999998754

>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=96.81  E-value=0.00059  Score=54.70  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|||||||++.|.|..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458999999999999999999764

>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=96.80  E-value=0.00059  Score=55.28  Aligned_cols=24  Identities=33%  Similarity=0.459  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999998754

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.80  E-value=0.0006  Score=55.48  Aligned_cols=24  Identities=29%  Similarity=0.405  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||+++|.|..
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998764

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.79  E-value=0.00075  Score=50.50  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=21.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ++...|+++|++||||||+++.|.+
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3445799999999999999999864

>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=96.79  E-value=0.00062  Score=55.99  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=21.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||+++|.|..
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            348999999999999999998754

>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=96.79  E-value=0.00064  Score=54.16  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999999764

>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=96.78  E-value=0.00064  Score=54.58  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|||||||+++|.|..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            33468999999999999999998754

>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=96.76  E-value=0.00069  Score=53.67  Aligned_cols=24  Identities=29%  Similarity=0.268  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999999764

>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=96.75  E-value=0.00068  Score=54.37  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999998764

>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=96.75  E-value=0.00069  Score=54.66  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998764

>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=96.72  E-value=0.00078  Score=54.35  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=21.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -.++++|+.|||||||++.|.|.
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999985

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.71  E-value=0.00086  Score=50.60  Aligned_cols=26  Identities=15%  Similarity=0.112  Sum_probs=21.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++++|+.|+|||||++.|.|..
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34468999999999999999998643

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.71  E-value=0.00075  Score=50.96  Aligned_cols=21  Identities=38%  Similarity=0.287  Sum_probs=18.5

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      -.++++|++|||||||++++.
T Consensus        10 ei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHc
Confidence            458999999999999999755

>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=96.71  E-value=0.00077  Score=55.03  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcCC
Confidence            358999999999999999998764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.71  E-value=0.00076  Score=54.81  Aligned_cols=25  Identities=28%  Similarity=0.402  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|||||||++.|.|..
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3458999999999999999999764

>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=96.70  E-value=0.00079  Score=54.70  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998764

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.70  E-value=0.00099  Score=51.81  Aligned_cols=24  Identities=25%  Similarity=0.090  Sum_probs=21.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...|+++|++|+|||||++.|.+.
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhh
Confidence            456899999999999999999854

>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=96.69  E-value=0.00079  Score=58.57  Aligned_cols=24  Identities=21%  Similarity=0.436  Sum_probs=21.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..++++|+.|+|||||+++|.|..
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCC
Confidence            479999999999999999999853

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.68  E-value=0.00065  Score=53.51  Aligned_cols=22  Identities=18%  Similarity=0.099  Sum_probs=20.3

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++++|+.|||||||+++|.|.
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            4899999999999999999874

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.68  E-value=0.00064  Score=52.74  Aligned_cols=26  Identities=12%  Similarity=0.196  Sum_probs=22.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....++|+++|+.|+|||||+++|+.
T Consensus        35 ~~~~~~i~ivG~~gvGKTtl~~~l~~   60 (226)
T 2hf9_A           35 KHGVVAFDFMGAIGSGKTLLIEKLID   60 (226)
T ss_dssp             HTTCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             hCCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            34567899999999999999999984

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.68  E-value=0.00084  Score=49.95  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.9

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|+++|++|||||||++.|.+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999975

>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=96.68  E-value=0.00085  Score=54.32  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            358999999999999999999764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.67  E-value=0.00084  Score=54.92  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998764

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.65  E-value=0.0007  Score=53.23  Aligned_cols=24  Identities=17%  Similarity=0.048  Sum_probs=16.1

Q ss_pred             CcceEEECCCCCChHHHHhHHh-cC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS-GV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~-g~   40 (182)
                      ...++++|++|||||||++.|. +.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC--
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3468999999999999999998 64

>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=96.65  E-value=0.00093  Score=54.49  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -.++|+|+.|||||||++.|.|.
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999986

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.64  E-value=0.00089  Score=54.53  Aligned_cols=25  Identities=24%  Similarity=0.404  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|||||||++.|.|..
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3458999999999999999998764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.63  E-value=0.00093  Score=54.97  Aligned_cols=24  Identities=17%  Similarity=0.159  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            348999999999999999998754

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.62  E-value=0.00094  Score=54.08  Aligned_cols=24  Identities=25%  Similarity=0.481  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999999764

>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=96.61  E-value=0.001  Score=55.58  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=22.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+...|+|+|++|||||||++.|.+.
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            34557999999999999999999853

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.58  E-value=0.0011  Score=56.75  Aligned_cols=24  Identities=29%  Similarity=0.409  Sum_probs=21.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..++++|++|+|||||+++|.|..
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            468999999999999999999754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.57  E-value=0.0012  Score=52.58  Aligned_cols=24  Identities=38%  Similarity=0.353  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|+|+|+.|||||||++.|.+
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            445699999999999999999975

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.57  E-value=0.0012  Score=53.75  Aligned_cols=26  Identities=19%  Similarity=0.175  Sum_probs=22.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+.-.++|+|+.|||||||+++|.+.
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHh
Confidence            34456899999999999999999873

>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=96.56  E-value=0.0012  Score=50.85  Aligned_cols=26  Identities=23%  Similarity=0.216  Sum_probs=22.1

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+...|+++|++|||||||.+.|.+
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34556799999999999999999874

>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=96.56  E-value=0.0011  Score=55.32  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.-.++|+|++|+|||||++.|.|
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhh
Confidence            334689999999999999999985

>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=96.53  E-value=0.0015  Score=51.93  Aligned_cols=25  Identities=32%  Similarity=0.407  Sum_probs=21.9

Q ss_pred             CcceEEECCCCCChHHHHhHHh---cCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS---GVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~---g~~   41 (182)
                      ...|+|+|++|||||||++.|.   |..
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~   54 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQ   54 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            3579999999999999999998   654

>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=96.52  E-value=0.0014  Score=50.87  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=19.9

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|+++|++||||||+++.|.+
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            4699999999999999999974

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.52  E-value=0.0015  Score=50.04  Aligned_cols=22  Identities=32%  Similarity=0.330  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+++|.+||||||+++.|.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~   39 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIA   39 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3569999999999999999996

>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=96.49  E-value=0.0012  Score=54.50  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..++++|++|+|||||+++|.|..
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCcHHHHHHHhcccc
Confidence            458999999999999999998754

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.48  E-value=0.0016  Score=50.16  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=20.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|+++|++|||||||++.|..
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999999974

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.47  E-value=0.0014  Score=53.49  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|||||||++.|.|..
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3358999999999999999999865

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.45  E-value=0.0015  Score=47.81  Aligned_cols=20  Identities=25%  Similarity=0.194  Sum_probs=18.4

Q ss_pred             cceEEECCCCCChHHHHhHH
Q psy1174          18 SYPGTIGHVAHGKSTVVKAI   37 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L   37 (182)
                      ..|+++|++||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35899999999999999999

>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=96.45  E-value=0.0015  Score=49.44  Aligned_cols=21  Identities=29%  Similarity=0.268  Sum_probs=19.2

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++++|++|||||||++.|.+
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            479999999999999999974

>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=96.42  E-value=0.0015  Score=55.96  Aligned_cols=24  Identities=29%  Similarity=0.517  Sum_probs=21.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||+++|.|..
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHhcCC
Confidence            348999999999999999998754

>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=96.40  E-value=0.0014  Score=54.24  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            358999999999999999998764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.39  E-value=0.0018  Score=54.48  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+..|+|+|++|||||||++.|.+
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            445799999999999999998863

>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=96.39  E-value=0.0014  Score=50.70  Aligned_cols=22  Identities=14%  Similarity=0.351  Sum_probs=20.0

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      -.++|+|++|+|||||+..|.+
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999986

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.39  E-value=0.0016  Score=50.44  Aligned_cols=22  Identities=27%  Similarity=0.214  Sum_probs=19.8

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++++|+.|+|||||++.|.+.
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            4899999999999999999863

>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=96.37  E-value=0.0015  Score=55.80  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        31 e~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCchHHHHHHHHhcCC
Confidence            348999999999999999999764

>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=96.37  E-value=0.0022  Score=48.72  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...+|+++|.+||||||+.+.|..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999864

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.36  E-value=0.0018  Score=47.71  Aligned_cols=20  Identities=30%  Similarity=0.021  Sum_probs=18.7

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|+++|++||||||+.+.|.
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~   22 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLS   22 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999996

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.36  E-value=0.0021  Score=49.34  Aligned_cols=24  Identities=25%  Similarity=0.141  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +..+|+++|++||||||+...|.+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            345799999999999999999973

>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=96.35  E-value=0.0019  Score=49.58  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=20.0

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|+++|++||||||+.+.|.+
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            4689999999999999999975

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.35  E-value=0.0021  Score=49.92  Aligned_cols=22  Identities=27%  Similarity=0.222  Sum_probs=19.6

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.|+|+||+|+|||||++.|+.
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4489999999999999999974

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.34  E-value=0.0018  Score=55.28  Aligned_cols=24  Identities=29%  Similarity=0.646  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            348999999999999999998764

>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=96.33  E-value=0.0018  Score=55.27  Aligned_cols=24  Identities=21%  Similarity=0.472  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHHCCC
Confidence            358999999999999999999764

>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=96.33  E-value=0.0016  Score=54.77  Aligned_cols=24  Identities=25%  Similarity=0.237  Sum_probs=21.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -+++|+|+.|||||||+++|.+..
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            468999999999999999999754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.32  E-value=0.0019  Score=55.19  Aligned_cols=24  Identities=29%  Similarity=0.548  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCchHHHHHHHHhcCC
Confidence            358999999999999999998754

>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=96.31  E-value=0.0014  Score=54.83  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|+.|||||||++.|.|..
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHHcCC
Confidence            3458999999999999999998654

>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=96.30  E-value=0.0019  Score=55.31  Aligned_cols=24  Identities=25%  Similarity=0.506  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcCC
Confidence            348999999999999999999764

>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=96.29  E-value=0.002  Score=55.52  Aligned_cols=24  Identities=29%  Similarity=0.558  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHHcCC
Confidence            358999999999999999999764

>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=96.29  E-value=0.002  Score=55.24  Aligned_cols=24  Identities=25%  Similarity=0.524  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            357999999999999999998754

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.28  E-value=0.0018  Score=55.00  Aligned_cols=26  Identities=23%  Similarity=0.280  Sum_probs=22.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-+++|+|++|||||||+++|.+..
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34579999999999999999999754

>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=96.28  E-value=0.002  Score=53.32  Aligned_cols=22  Identities=18%  Similarity=0.190  Sum_probs=19.9

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...++++|++|+|||||+++|.
T Consensus       165 G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          165 GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3458999999999999999998

>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=96.27  E-value=0.0024  Score=47.91  Aligned_cols=22  Identities=23%  Similarity=0.202  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|++.|.+||||||+...|.
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~   27 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIV   27 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999986

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.27  E-value=0.0023  Score=48.07  Aligned_cols=22  Identities=23%  Similarity=0.143  Sum_probs=19.9

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..|+++|.+||||||+...|.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~   24 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIV   24 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999886

>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=96.27  E-value=0.0019  Score=49.49  Aligned_cols=21  Identities=33%  Similarity=0.464  Sum_probs=19.5

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +|+|+|++||||||+++.|.+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            589999999999999999975

>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=96.27  E-value=0.0024  Score=49.15  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=21.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...|+|+|++|||||||++.|.+.
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            456899999999999999999864

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.26  E-value=0.0027  Score=47.33  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=19.8

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|.++|.+||||||+.+.|..
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            4689999999999999999974

>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=96.26  E-value=0.0024  Score=47.88  Aligned_cols=22  Identities=14%  Similarity=0.037  Sum_probs=19.7

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|++.|.+||||||+++.|.
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~   24 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAM   24 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3568999999999999999986

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.25  E-value=0.0028  Score=47.87  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ++...|+++|.+||||||++..|..
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            3456799999999999999999863

>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=96.25  E-value=0.0021  Score=53.17  Aligned_cols=24  Identities=33%  Similarity=0.408  Sum_probs=21.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....|+|+|+.|||||||++.|.+
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999975

>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=96.23  E-value=0.002  Score=54.88  Aligned_cols=25  Identities=24%  Similarity=0.193  Sum_probs=21.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +.-.++|+|+.|||||||+++|++.
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3347999999999999999999863

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.22  E-value=0.0027  Score=47.17  Aligned_cols=22  Identities=32%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|.+.|++||||||+...|..
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            4589999999999999999975

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.22  E-value=0.0029  Score=50.75  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=20.2

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+|+|++||||||+++.|.
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            4579999999999999999998

>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=96.20  E-value=0.002  Score=48.51  Aligned_cols=23  Identities=17%  Similarity=0.102  Sum_probs=20.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++++|++|+|||||+.++.+
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999975

>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=96.20  E-value=0.0031  Score=47.29  Aligned_cols=23  Identities=22%  Similarity=0.193  Sum_probs=20.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...+|.++|.+||||||+...|.
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~   32 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELA   32 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHH
Confidence            34578999999999999999996

>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=96.18  E-value=0.0027  Score=48.68  Aligned_cols=23  Identities=22%  Similarity=0.083  Sum_probs=20.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +...|++.|.+||||||+.+.|.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~   30 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLV   30 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            34679999999999999999996

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.14  E-value=0.0032  Score=47.97  Aligned_cols=22  Identities=18%  Similarity=0.125  Sum_probs=20.0

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|++.|.+||||||+.+.|.
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~   25 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLK   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHH
Confidence            4579999999999999999996

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.13  E-value=0.0011  Score=50.80  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++|+|++|||||||++.|.+.
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            5899999999999999999863

>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=96.13  E-value=0.0017  Score=55.17  Aligned_cols=24  Identities=25%  Similarity=0.462  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCccHHHHHHHHHcCC
Confidence            358999999999999999998764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.12  E-value=0.0028  Score=48.87  Aligned_cols=24  Identities=25%  Similarity=0.213  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|+|+|++|||||||++.|.+
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            345799999999999999999874

>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=96.11  E-value=0.002  Score=54.38  Aligned_cols=24  Identities=25%  Similarity=0.364  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..++|+|+.|||||||++.|.|..
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998643

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.11  E-value=0.0031  Score=47.36  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+++|++||||||+...|.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La   26 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLA   26 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999999996

>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=96.10  E-value=0.0031  Score=47.87  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|+|+|.+||||||+.+.|..
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999974

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.07  E-value=0.0026  Score=56.68  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=22.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ..+++|+|++|||||||+++|++..
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3469999999999999999999755

>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=96.06  E-value=0.0037  Score=51.62  Aligned_cols=25  Identities=20%  Similarity=0.069  Sum_probs=21.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++..|+|+|++|||||||++.|.+
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998864

>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=96.06  E-value=0.0027  Score=54.75  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=20.7

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            48999999999999999998753

>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=96.05  E-value=0.0031  Score=53.83  Aligned_cols=26  Identities=19%  Similarity=0.175  Sum_probs=22.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+.-.++|+|++|||||||+++|++.
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            34457999999999999999999863

>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=96.02  E-value=0.004  Score=47.66  Aligned_cols=22  Identities=18%  Similarity=0.215  Sum_probs=20.0

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++++|++|+|||||++.|++
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4689999999999999999985

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.02  E-value=0.0034  Score=47.10  Aligned_cols=22  Identities=18%  Similarity=0.166  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+++|.+||||||+...|.
T Consensus         4 g~~I~l~G~~GsGKST~~~~La   25 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLA   25 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3468999999999999999996

>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=96.01  E-value=0.0036  Score=52.07  Aligned_cols=24  Identities=17%  Similarity=0.184  Sum_probs=21.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|+++|+.|||||||++.|.+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            345789999999999999999974

>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=96.01  E-value=0.0036  Score=49.29  Aligned_cols=24  Identities=17%  Similarity=0.142  Sum_probs=21.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|+|.|+.|||||||++.|.+
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            445799999999999999999975

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.99  E-value=0.0037  Score=47.01  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|.++|.+||||||+...|.
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~   26 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALA   26 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3568999999999999999986

>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=95.99  E-value=0.0017  Score=55.31  Aligned_cols=24  Identities=29%  Similarity=0.548  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        32 e~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            358999999999999999999764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.98  E-value=0.0036  Score=47.36  Aligned_cols=21  Identities=38%  Similarity=0.428  Sum_probs=19.0

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+++|.+||||||++..|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999999973

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.98  E-value=0.0044  Score=47.11  Aligned_cols=23  Identities=22%  Similarity=0.065  Sum_probs=20.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|++.|.+||||||+++.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            45699999999999999999974

>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=95.94  E-value=0.004  Score=49.64  Aligned_cols=25  Identities=32%  Similarity=0.311  Sum_probs=20.6

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ......|+|.|.+||||||+.+.|.
T Consensus        19 ~~~~~iI~I~G~~GSGKST~a~~L~   43 (252)
T 1uj2_A           19 GGEPFLIGVSGGTASGKSSVCAKIV   43 (252)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHH
Confidence            3345679999999999999999886

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.94  E-value=0.0042  Score=46.84  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+++|.+||||||+...|.
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            4569999999999999999986

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=95.93  E-value=0.0029  Score=57.36  Aligned_cols=24  Identities=42%  Similarity=0.606  Sum_probs=21.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.|+|+|+.|||||||+++|.|..
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC
T ss_pred             CeEEEECCCCChHHHHHHHHhCCC
Confidence            458999999999999999999864

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.92  E-value=0.0033  Score=46.64  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...++++|++|+|||||+.++.+
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            445689999999999999999986

>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=95.90  E-value=0.0029  Score=52.66  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=21.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ...++|+|+.|||||||++.|++.
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhh
Confidence            456899999999999999999964

>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=95.90  E-value=0.0039  Score=46.78  Aligned_cols=20  Identities=30%  Similarity=0.488  Sum_probs=18.4

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+|+.|+|||||+++|.
T Consensus        28 ~~~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            46899999999999999996

>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=95.87  E-value=0.0041  Score=54.06  Aligned_cols=25  Identities=24%  Similarity=0.032  Sum_probs=21.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +.-.++|+|+.|||||||+++|++.
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhh
Confidence            4446899999999999999999864

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.85  E-value=0.004  Score=46.59  Aligned_cols=20  Identities=30%  Similarity=0.265  Sum_probs=18.7

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|++.|.+||||||+++.|.
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~   22 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999996

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.85  E-value=0.0034  Score=55.20  Aligned_cols=26  Identities=12%  Similarity=0.211  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +...++|+|+.|||||||++.|.|..
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            34568999999999999999998753

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.84  E-value=0.0053  Score=47.68  Aligned_cols=23  Identities=26%  Similarity=0.143  Sum_probs=20.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +...|+++|.+||||||+...|.
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La   25 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQ   25 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            34679999999999999999986

>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=95.84  E-value=0.0052  Score=47.05  Aligned_cols=23  Identities=17%  Similarity=0.189  Sum_probs=20.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++++|+.|||||||+..|+.
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999999975

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.83  E-value=0.0045  Score=47.72  Aligned_cols=20  Identities=25%  Similarity=0.185  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|++.|++||||||+.+.|.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~   21 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQII   21 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999995

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.82  E-value=0.0047  Score=47.20  Aligned_cols=22  Identities=27%  Similarity=0.178  Sum_probs=20.0

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|++.|.+||||||+.+.|.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~   31 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLV   31 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHH
Confidence            4579999999999999999996

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.79  E-value=0.0061  Score=46.58  Aligned_cols=23  Identities=17%  Similarity=0.098  Sum_probs=20.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ....|+++|.+||||||+...|.
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La   41 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLA   41 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34579999999999999999986

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.78  E-value=0.0053  Score=50.96  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.-.++++|+.|+|||||++.|.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            345789999999999999999975

>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=95.78  E-value=0.0053  Score=51.65  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=21.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...++++|+.|+|||||++.|.+
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999999985

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.77  E-value=0.0058  Score=45.83  Aligned_cols=24  Identities=25%  Similarity=0.159  Sum_probs=20.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|+++|.+||||||+++.|.+
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            345689999999999999999964

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.75  E-value=0.0056  Score=45.75  Aligned_cols=20  Identities=35%  Similarity=0.473  Sum_probs=18.7

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|+++|++||||||+...|.
T Consensus         6 ~i~i~G~~GsGKsTla~~La   25 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALA   25 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHH
Confidence            58999999999999999986

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.74  E-value=0.0051  Score=47.48  Aligned_cols=20  Identities=25%  Similarity=0.141  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|+++|++||||||+...|.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~   21 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIV   21 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999996

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.74  E-value=0.0062  Score=48.51  Aligned_cols=23  Identities=17%  Similarity=0.068  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..+|++.|++||||||+...|.
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~   50 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLK   50 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            55689999999999999999996

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.74  E-value=0.006  Score=47.19  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|+|.|.+||||||+++.|..
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            35799999999999999999863

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.72  E-value=0.0067  Score=46.24  Aligned_cols=23  Identities=22%  Similarity=0.148  Sum_probs=20.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ....|++.|.+||||||+...|.
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~   36 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLV   36 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            34579999999999999999996

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.69  E-value=0.0053  Score=54.92  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
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            358999999999999999999754

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.69  E-value=0.0055  Score=47.87  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=19.9

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+++|.+||||||+...|.
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La   28 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRIT   28 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3569999999999999999997

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.67  E-value=0.0052  Score=55.03  Aligned_cols=24  Identities=33%  Similarity=0.549  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        26 ei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           26 TILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            358999999999999999999754

>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=95.61  E-value=0.015  Score=49.24  Aligned_cols=36  Identities=11%  Similarity=0.050  Sum_probs=33.2

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcC
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD  138 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~  138 (182)
                      ...+.+.||+|++.|..........++++|+|+|..
T Consensus       160 ~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS  195 (340)
T 4fid_A          160 DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLA  195 (340)
T ss_dssp             SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGG
T ss_pred             eeeeccccCCCcccccccHHHHhccCCEEEEEEECC
Confidence            367899999999999999888899999999999997

>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=95.58  E-value=0.0055  Score=54.32  Aligned_cols=23  Identities=22%  Similarity=0.156  Sum_probs=20.5

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -.++|+|+.|||||||+++|.|.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl   52 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTA   52 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcC
Confidence            46899999999999999999853

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.56  E-value=0.0066  Score=45.83  Aligned_cols=21  Identities=24%  Similarity=0.200  Sum_probs=19.4

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|+++|.+||||||+...|.
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~   33 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLV   33 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            569999999999999999996

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.54  E-value=0.0074  Score=49.49  Aligned_cols=23  Identities=22%  Similarity=0.096  Sum_probs=20.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ....|.+.|++||||||+...|.
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~   54 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIF   54 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34678999999999999999996

>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=95.54  E-value=0.0064  Score=54.62  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
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            458999999999999999998754

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.53  E-value=0.0064  Score=55.28  Aligned_cols=24  Identities=38%  Similarity=0.527  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|+|||||++.|.|..
T Consensus       104 ei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          104 QVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            358999999999999999998654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.52  E-value=0.0072  Score=45.29  Aligned_cols=21  Identities=24%  Similarity=0.162  Sum_probs=18.8

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999863

>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=95.51  E-value=0.0073  Score=54.25  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998654

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.50  E-value=0.0074  Score=46.34  Aligned_cols=22  Identities=14%  Similarity=0.158  Sum_probs=19.6

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      -.++++|++|+|||||+.+|.+
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4589999999999999999873

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=95.49  E-value=0.0087  Score=44.00  Aligned_cols=25  Identities=24%  Similarity=0.442  Sum_probs=21.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....++.+.|++|+|||+|+.++..
T Consensus        41 ~~~~~~ll~G~~G~GKT~l~~~~~~   65 (195)
T 1jbk_A           41 RTKNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHH
Confidence            3456789999999999999999874

>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=95.48  E-value=0.008  Score=45.08  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=18.9

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|+++|.+||||||+...|.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La   23 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLA   23 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            358999999999999999886

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.48  E-value=0.0055  Score=45.73  Aligned_cols=22  Identities=18%  Similarity=0.167  Sum_probs=15.7

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|.+.|.+||||||+...|.
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La   26 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLH   26 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3468999999999999999996

>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=95.46  E-value=0.0083  Score=44.31  Aligned_cols=20  Identities=20%  Similarity=0.177  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|++.|.+||||||+...|.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La   23 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELA   23 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999986

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.45  E-value=0.006  Score=54.81  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|++|||||||++.|.|..
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            458999999999999999998754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.43  E-value=0.0082  Score=44.19  Aligned_cols=20  Identities=40%  Similarity=0.355  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|++.|.+||||||+...|.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~   21 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLS   21 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999986

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.42  E-value=0.0085  Score=51.09  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=21.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.-.++++|+.|+|||||++.|.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            445789999999999999999975

>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=95.41  E-value=0.0072  Score=54.89  Aligned_cols=24  Identities=33%  Similarity=0.493  Sum_probs=21.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|+|||||++.|.|..
T Consensus       118 e~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          118 MVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhCCC
Confidence            358999999999999999999754

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.40  E-value=0.0073  Score=49.16  Aligned_cols=23  Identities=22%  Similarity=0.174  Sum_probs=20.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .-++++|++|+|||||+++|.+.
T Consensus        45 ~GvlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           45 AGVLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             SEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            34999999999999999999753

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.39  E-value=0.0072  Score=54.53  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|||||||++.|.|..
T Consensus       381 G~~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          381 GQKVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             TCEEEEECCTTSSTTHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCc
Confidence            3458999999999999999998754

>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=95.39  E-value=0.0087  Score=44.31  Aligned_cols=20  Identities=35%  Similarity=0.421  Sum_probs=18.0

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+|+.|+||||++++|.
T Consensus        25 ~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            35899999999999999985

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.38  E-value=0.0088  Score=44.25  Aligned_cols=20  Identities=25%  Similarity=0.391  Sum_probs=18.8

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|++.|.+||||||+...|.
T Consensus         9 ~i~l~G~~GsGKSTva~~La   28 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELG   28 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999986

>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=95.38  E-value=0.0053  Score=50.41  Aligned_cols=57  Identities=19%  Similarity=0.130  Sum_probs=37.3

Q ss_pred             eCCChh-HHHHHHHhccccCCeEEEEEEcCCCcccccc---cccchhhHHHHhHhccchhhhH
Q psy1174         110 DCPGHD-ILMATMLNGAAVMDAALLLIGCDNAAKTPEI---VDCPGHDILMATMLNGAAVMDA  168 (182)
Q Consensus       110 DtPGh~-~f~~~~~~~~~~aD~ailVVda~~g~~~~qt---~e~l~~~il~~~~~nk~d~~~~  168 (182)
                      +.|||. ....++...+..+|+++.||||..+ .....   .++++ .......+||+|+.+.
T Consensus         5 w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p-~~~~~~~l~~~l~-~kp~ilVlNK~DL~~~   65 (282)
T 1puj_A            5 WFPGHMAKARREVTEKLKLIDIVYELVDARIP-MSSRNPMIEDILK-NKPRIMLLNKADKADA   65 (282)
T ss_dssp             ----CTTHHHHHHHHHGGGCSEEEEEEETTST-TTTSCHHHHHHCS-SSCEEEEEECGGGSCH
T ss_pred             CCchHHHHHHHHHHHHHhhCCEEEEEEeCCCC-CccCCHHHHHHHC-CCCEEEEEECcccCCH
Confidence            569996 6777889999999999999999987 33321   22221 1223456999998864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.37  E-value=0.0077  Score=53.93  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.8

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++|+|+.|||||||+++|.|..
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999999754

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.36  E-value=0.01  Score=47.01  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..+.++|++|+|||||+.+|.+.
T Consensus        50 ~g~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           50 KGVLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            34899999999999999999753

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=95.33  E-value=0.0096  Score=49.56  Aligned_cols=22  Identities=23%  Similarity=0.203  Sum_probs=20.0

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++++|++|+|||||+++|.+
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999999975

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.32  E-value=0.0095  Score=46.26  Aligned_cols=21  Identities=29%  Similarity=0.154  Sum_probs=19.4

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|+++|++||||||+...|.
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            568999999999999999996

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.31  E-value=0.0033  Score=48.18  Aligned_cols=21  Identities=33%  Similarity=0.409  Sum_probs=18.9

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+|.|.+||||||+++.|..
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            479999999999999999963

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.31  E-value=0.0085  Score=53.55  Aligned_cols=24  Identities=38%  Similarity=0.592  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|+|||||+++|.|..
T Consensus       313 e~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          313 EVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999999754

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.29  E-value=0.0072  Score=48.31  Aligned_cols=24  Identities=17%  Similarity=0.030  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+..|.++|++||||||+...|..
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            446789999999999999999863

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.23  E-value=0.0079  Score=48.86  Aligned_cols=22  Identities=23%  Similarity=0.077  Sum_probs=19.6

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      -.++|+|++|+|||||+..|.+
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~   57 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQAL   57 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            3589999999999999999874

>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=95.23  E-value=0.0092  Score=46.22  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.0

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..|+++|.+||||||+.+.|.
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~   33 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILK   33 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999999986

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.22  E-value=0.013  Score=47.70  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=20.0

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+|.|.+||||||+.+.|.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999999986

>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=95.19  E-value=0.0097  Score=54.04  Aligned_cols=23  Identities=39%  Similarity=0.615  Sum_probs=20.8

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++|+|+.|+|||||+++|.|..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999999754

>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=95.18  E-value=0.011  Score=52.72  Aligned_cols=24  Identities=17%  Similarity=0.146  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...++++|+.|+|||||++.|.+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHH
Confidence            345689999999999999999975

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.18  E-value=0.011  Score=47.49  Aligned_cols=21  Identities=19%  Similarity=0.221  Sum_probs=19.0

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+|+|++|||||||...|.+
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            579999999999999999963

>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=95.17  E-value=0.011  Score=50.78  Aligned_cols=24  Identities=25%  Similarity=0.246  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...++++|++|+|||||+.+|.+
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            345789999999999999999985

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.17  E-value=0.0085  Score=53.99  Aligned_cols=24  Identities=29%  Similarity=0.443  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus       370 e~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          370 SLVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             CEEEEECSSSSSHHHHHHTTTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCc
Confidence            458999999999999999998654

>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=95.17  E-value=0.013  Score=44.56  Aligned_cols=21  Identities=29%  Similarity=0.359  Sum_probs=19.2

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+|.|.+||||||+...|..
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            689999999999999999963

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.17  E-value=0.011  Score=47.38  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..|+|.|++||||||+.+.|.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la   30 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLA   30 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999996

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.16  E-value=0.0096  Score=46.27  Aligned_cols=21  Identities=29%  Similarity=0.205  Sum_probs=19.3

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|+++|.+||||||+...|.
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La   26 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIK   26 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            568999999999999999996

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.14  E-value=0.0087  Score=50.65  Aligned_cols=22  Identities=27%  Similarity=0.255  Sum_probs=20.1

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++++|+.|+|||||++.|.+.
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999864

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.13  E-value=0.01  Score=45.89  Aligned_cols=20  Identities=25%  Similarity=0.152  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|++.|.+||||||+...|.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~   21 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIM   21 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999996

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.10  E-value=0.013  Score=45.23  Aligned_cols=25  Identities=24%  Similarity=0.127  Sum_probs=21.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...|+++|.+||||||++..|.+
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4456789999999999999999864

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.09  E-value=0.011  Score=53.76  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=20.4

Q ss_pred             eEEECCCCCChHHHHhHHhcCC
Q psy1174          20 PGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ++|+|+.|+|||||+++|.|..
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            7999999999999999999764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.06  E-value=0.011  Score=47.63  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=19.8

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+.++|++|+|||||+.+|.+.
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHHH
Confidence            4899999999999999999853

>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=95.04  E-value=0.013  Score=47.00  Aligned_cols=22  Identities=27%  Similarity=0.158  Sum_probs=19.5

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|.++|.+||||||+...|..
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            4689999999999999999863

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.02  E-value=0.012  Score=49.92  Aligned_cols=20  Identities=35%  Similarity=0.361  Sum_probs=18.1

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .++|+|+.|||||||+++|.
T Consensus        25 ~~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           25 ITVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            35799999999999999986

>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=95.02  E-value=0.012  Score=45.75  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=20.0

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      -.++++|++|+|||||+..|.+
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            4589999999999999999986

>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=95.01  E-value=0.015  Score=45.57  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=19.5

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+|+++|.+||||||+...|.
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La   37 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLA   37 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999996

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.00  E-value=0.012  Score=47.51  Aligned_cols=23  Identities=26%  Similarity=0.288  Sum_probs=20.4

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+|+++|++||||||+.+.|.+
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            45799999999999999999964

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.92  E-value=0.011  Score=51.65  Aligned_cols=22  Identities=18%  Similarity=0.214  Sum_probs=20.0

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++|+|+.|+|||||++.|.+.
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999854

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.92  E-value=0.0091  Score=49.12  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=16.7

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+|.|++||||||+.+.|.
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~   26 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFD   26 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4569999999999999999886

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=94.92  E-value=0.0023  Score=51.23  Aligned_cols=22  Identities=27%  Similarity=0.223  Sum_probs=19.3

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .++|+|+.|||||||+++|.+.
T Consensus        29 ~~~i~GpnGsGKSTll~~i~g~   50 (227)
T 1qhl_A           29 VTTLSGGNGAGKSTTMAAFVTA   50 (227)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3689999999999999999753

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=94.92  E-value=0.011  Score=43.42  Aligned_cols=25  Identities=20%  Similarity=0.364  Sum_probs=21.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....++.+.|++|+|||+|+.++..
T Consensus        41 ~~~~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           41 RTKNNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             SSSCEEEEESCGGGCHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHH
Confidence            3456789999999999999998864

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=94.90  E-value=0.015  Score=44.51  Aligned_cols=22  Identities=23%  Similarity=0.196  Sum_probs=19.8

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++++|++|+|||||+..|.+
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            4589999999999999999976

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.89  E-value=0.017  Score=45.77  Aligned_cols=22  Identities=18%  Similarity=0.193  Sum_probs=19.3

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+.|.++|++||||+|....|.
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~   50 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLV   50 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3467889999999999999986

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.87  E-value=0.017  Score=45.37  Aligned_cols=24  Identities=33%  Similarity=0.284  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|+|+|++||||||+...|.+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999874

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.81  E-value=0.016  Score=45.36  Aligned_cols=20  Identities=20%  Similarity=0.107  Sum_probs=18.5

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|++.|.+||||||+...|.
T Consensus         2 ~I~l~G~~GsGKsT~a~~La   21 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVK   21 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48999999999999999986

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=94.79  E-value=0.018  Score=45.58  Aligned_cols=24  Identities=33%  Similarity=0.416  Sum_probs=20.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....+.+.|++|+|||||+.+|.+
T Consensus        44 ~~~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           44 IPKGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHH
Confidence            345689999999999999999974

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=94.76  E-value=0.0079  Score=48.80  Aligned_cols=55  Identities=13%  Similarity=0.128  Sum_probs=34.5

Q ss_pred             CChhH-HHHHHHhccccCCeEEEEEEcCCCccccccc--ccchhhHHHHhHhccchhhhHH
Q psy1174         112 PGHDI-LMATMLNGAAVMDAALLLIGCDNAAKTPEIV--DCPGHDILMATMLNGAAVMDAA  169 (182)
Q Consensus       112 PGh~~-f~~~~~~~~~~aD~ailVVda~~g~~~~qt~--e~l~~~il~~~~~nk~d~~~~~  169 (182)
                      |||.. ...++...+..+|+++.|+||..+ ......  +.+  .......+||+|+.+..
T Consensus         5 PGhm~ka~~~~~~~l~~~D~vl~VvDar~P-~~~~~~~l~ll--~k~~iivlNK~DL~~~~   62 (262)
T 3cnl_A            5 PGHIEKAKRQIKDLLRLVNTVVEVRDARAP-FATSAYGVDFS--RKETIILLNKVDIADEK   62 (262)
T ss_dssp             ----CCTTHHHHHHHTTCSEEEEEEETTST-TTTSCTTSCCT--TSEEEEEEECGGGSCHH
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeCCCC-CcCcChHHHhc--CCCcEEEEECccCCCHH
Confidence            88864 334678888999999999999987 333211  122  33344669999988643

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=94.59  E-value=0.022  Score=45.02  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....|++.|.+||||||+++.|..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            345789999999999999999963

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=94.58  E-value=0.019  Score=44.91  Aligned_cols=20  Identities=25%  Similarity=0.260  Sum_probs=18.4

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|.++|++||||+|....|.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La   21 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLA   21 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47899999999999999997

>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=94.58  E-value=0.024  Score=47.73  Aligned_cols=36  Identities=11%  Similarity=0.125  Sum_probs=32.2

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcC
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD  138 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~  138 (182)
                      ..++.+.||.|++.|..........++++|+|+|..
T Consensus       166 ~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls  201 (327)
T 3ohm_A          166 SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALS  201 (327)
T ss_dssp             TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGG
T ss_pred             ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECc
Confidence            367889999999999998888889999999999876

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.55  E-value=0.021  Score=43.94  Aligned_cols=23  Identities=30%  Similarity=0.332  Sum_probs=20.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +..|+++|++||||||+...|..
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999998863

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=94.54  E-value=0.022  Score=43.69  Aligned_cols=24  Identities=17%  Similarity=0.131  Sum_probs=21.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++.+.|++|+|||||+.++..
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999999974

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=94.45  E-value=0.024  Score=43.10  Aligned_cols=22  Identities=23%  Similarity=0.181  Sum_probs=20.0

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++.+.|++|+|||||+.+|..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~   76 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIAN   76 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999999874

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.44  E-value=0.021  Score=48.36  Aligned_cols=22  Identities=18%  Similarity=0.222  Sum_probs=19.8

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|+|+|+++||||||...|..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4689999999999999999874

>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=94.44  E-value=0.022  Score=46.06  Aligned_cols=22  Identities=32%  Similarity=0.261  Sum_probs=19.6

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|.++|.+||||||+.+.|..
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            4589999999999999999874

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=94.36  E-value=0.019  Score=56.40  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=22.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|++|||||||++.|+|..
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~~~  468 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLRYY  468 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTTSS
T ss_pred             CCcEEEEEecCCCcHHHHHHHhcccc
Confidence            34468999999999999999998653

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=94.30  E-value=0.016  Score=52.81  Aligned_cols=20  Identities=30%  Similarity=0.478  Sum_probs=17.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .++|+|+.|||||||++.++
T Consensus       350 ~vaIiGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          350 FVAVTGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             EEEEECSTTSSHHHHHTTTH
T ss_pred             EEEEEeeCCCCHHHHHHHHH
Confidence            47999999999999998653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.29  E-value=0.027  Score=47.41  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=19.6

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|+|+|++|+|||||...|..
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            4689999999999999999873

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=94.28  E-value=0.024  Score=43.93  Aligned_cols=20  Identities=35%  Similarity=0.421  Sum_probs=18.0

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+|+.|+||||++++|.
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            45899999999999999985

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.28  E-value=0.023  Score=46.83  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...++++|+.|+||||++..|.+
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999974

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.20  E-value=0.013  Score=56.06  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=21.1

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++|+|+.|||||||++.|.|..
T Consensus       701 ivaIiGpNGSGKSTLLklLaGll  723 (986)
T 2iw3_A          701 RIAVIGPNGAGKSTLINVLTGEL  723 (986)
T ss_dssp             EEEECSCCCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999999864

>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=94.19  E-value=0.028  Score=42.22  Aligned_cols=23  Identities=17%  Similarity=0.072  Sum_probs=19.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++.+.|++|+|||+|+.++..
T Consensus        38 ~~~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           38 IPHLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34599999999999999998864

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.17  E-value=0.023  Score=45.78  Aligned_cols=22  Identities=14%  Similarity=0.187  Sum_probs=19.5

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++|+|++|+|||||+.+|.+
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4589999999999999998873

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.13  E-value=0.029  Score=46.58  Aligned_cols=25  Identities=20%  Similarity=0.151  Sum_probs=21.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...|+++|+.|+||||++..|.+
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHH
Confidence            3455789999999999999998874

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=94.12  E-value=0.019  Score=56.46  Aligned_cols=25  Identities=28%  Similarity=0.290  Sum_probs=21.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +.-.|+|+|++|||||||++.|.+.
T Consensus      1104 ~Ge~vaIVG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1104 PGQTLALVGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             TTCEEEEECSTTSSTTSHHHHHTTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            3446899999999999999999854

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.06  E-value=0.17  Score=43.87  Aligned_cols=22  Identities=18%  Similarity=0.152  Sum_probs=19.5

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|+|.|++++|||||...|..
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            4689999999999999999863

>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=94.01  E-value=0.028  Score=46.28  Aligned_cols=21  Identities=24%  Similarity=0.064  Sum_probs=19.2

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.+.|++|+|||||+.+|.+
T Consensus        38 ~~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           38 HLLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             CEEEECSTTSSHHHHHHTHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999875

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=93.99  E-value=0.026  Score=55.40  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=21.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|++|||||||++.|.|..
T Consensus       416 G~~~~ivG~sGsGKSTl~~ll~g~~  440 (1284)
T 3g5u_A          416 GQTVALVGNSGCGKSTTVQLMQRLY  440 (1284)
T ss_dssp             TCEEEEECCSSSSHHHHHHHTTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999998654

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=93.96  E-value=0.035  Score=47.00  Aligned_cols=24  Identities=21%  Similarity=0.070  Sum_probs=21.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++.|+|++|+|||||++.|+.
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~   57 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLL   57 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHH
Confidence            456799999999999999998873

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=93.91  E-value=0.031  Score=46.64  Aligned_cols=19  Identities=37%  Similarity=0.455  Sum_probs=17.4

Q ss_pred             eEEECCCCCChHHHHhHHh
Q psy1174          20 PGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~   38 (182)
                      .+|+|+.|+|||||++++.
T Consensus        26 ~~i~G~NGsGKS~lleAi~   44 (339)
T 3qkt_A           26 NLIIGQNGSGKSSLLDAIL   44 (339)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4799999999999999985

>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=93.88  E-value=0.038  Score=46.41  Aligned_cols=23  Identities=17%  Similarity=0.185  Sum_probs=20.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +..|+|+|++++|||||...|..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHH
Confidence            45689999999999999999973

>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=93.86  E-value=0.038  Score=43.34  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=21.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .....|.+.|++|+|||+|+.+|..
T Consensus        37 ~~~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            3456789999999999999999963

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.84  E-value=0.025  Score=46.84  Aligned_cols=20  Identities=30%  Similarity=0.522  Sum_probs=18.5

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+|+.|+|||||+++|.
T Consensus        26 ~~~i~G~NGsGKS~ll~ai~   45 (322)
T 1e69_A           26 VTAIVGPNGSGKSNIIDAIK   45 (322)
T ss_dssp             EEEEECCTTTCSTHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHH
Confidence            46899999999999999997

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=93.84  E-value=0.037  Score=44.55  Aligned_cols=24  Identities=17%  Similarity=0.184  Sum_probs=21.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...+.+.|++|+|||||+.+|.+
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHH
Confidence            456799999999999999999974

>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=93.81  E-value=0.027  Score=44.98  Aligned_cols=24  Identities=29%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|++.|..||||||+++.|..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999874

>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=93.81  E-value=0.027  Score=53.93  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.9

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      -.++++|+.|+|||||++.|.|
T Consensus       462 e~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          462 RRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3589999999999999999984

>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=93.75  E-value=0.04  Score=47.45  Aligned_cols=23  Identities=22%  Similarity=0.206  Sum_probs=20.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|.++|.+||||||+...|..
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999974

>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=93.68  E-value=0.043  Score=45.12  Aligned_cols=25  Identities=28%  Similarity=0.244  Sum_probs=21.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .....+.|.|++|+|||||+.++.+
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999999975

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=93.67  E-value=0.043  Score=43.85  Aligned_cols=25  Identities=24%  Similarity=0.175  Sum_probs=21.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...+.+.|++|+|||+|+.+|..
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHH
Confidence            3456799999999999999999974

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.66  E-value=0.019  Score=51.64  Aligned_cols=24  Identities=25%  Similarity=0.187  Sum_probs=20.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|+++|..|||||||+++|.+
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~  391 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAA  391 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHH
Confidence            345789999999999999999974

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=93.58  E-value=0.045  Score=44.13  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +..++.+.|++|+|||+|+.+|.+
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCcCHHHHHHHHHH
Confidence            345799999999999999999974

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=93.58  E-value=0.05  Score=41.17  Aligned_cols=21  Identities=14%  Similarity=0.165  Sum_probs=19.1

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+.+.|++|+|||||+.++.
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~   66 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLA   66 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            468999999999999999986

>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=93.57  E-value=0.043  Score=44.84  Aligned_cols=25  Identities=28%  Similarity=0.167  Sum_probs=21.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...|.+.|++|+|||+|+.+|.+
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHH
Confidence            3456799999999999999999974

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=93.52  E-value=0.012  Score=50.04  Aligned_cols=20  Identities=30%  Similarity=0.507  Sum_probs=18.5

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .++++|+.|+|||||+++|.
T Consensus        62 ~~~lvG~NGaGKStLl~aI~   81 (415)
T 4aby_A           62 FCAFTGETGAGKSIIVDALG   81 (415)
T ss_dssp             EEEEEESHHHHHHHHTHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            57999999999999999985

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=93.48  E-value=0.053  Score=39.32  Aligned_cols=24  Identities=13%  Similarity=0.025  Sum_probs=20.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...+|.+.|++|+|||+++.+|-.
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~   46 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQ   46 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999999963

>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=93.47  E-value=0.045  Score=46.04  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=20.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|+|.|++++|||||...|..
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCcCCHHHHHHHHHH
Confidence            34689999999999999999974

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.40  E-value=0.045  Score=43.81  Aligned_cols=22  Identities=23%  Similarity=0.137  Sum_probs=19.4

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.+++++|++||||||+...|.
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~   29 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIK   29 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHH
Confidence            4578999999999999999886

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.39  E-value=0.041  Score=42.64  Aligned_cols=21  Identities=14%  Similarity=0.067  Sum_probs=18.1

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..++|+|++|+|||||+..++
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~   44 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFL   44 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            457999999999999977765

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=93.38  E-value=0.041  Score=47.29  Aligned_cols=22  Identities=36%  Similarity=0.502  Sum_probs=19.4

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++|+|+.|+|||||+++|.+
T Consensus        27 ~~~~i~G~nG~GKstll~ai~~   48 (430)
T 1w1w_A           27 NFTSIIGPNGSGKSNMMDAISF   48 (430)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4578999999999999999973

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=93.33  E-value=0.036  Score=46.71  Aligned_cols=23  Identities=13%  Similarity=0.359  Sum_probs=20.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..+.|+|++|+|||||+.+|.+.
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999853

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=93.26  E-value=0.05  Score=46.24  Aligned_cols=37  Identities=14%  Similarity=0.153  Sum_probs=27.2

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCC
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      ...+.++||||++.|..........++++|+|+|..+
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~  236 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSE  236 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTC
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECcc
Confidence            4678999999999999888888899999999999997

>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=93.26  E-value=0.032  Score=47.30  Aligned_cols=36  Identities=8%  Similarity=-0.014  Sum_probs=31.3

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcC
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD  138 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~  138 (182)
                      ...+.+.||+|++.|..........+|++|+|+|..
T Consensus       182 ~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis  217 (354)
T 2xtz_A          182 GEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAIS  217 (354)
T ss_dssp             --EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGG
T ss_pred             ceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECc
Confidence            367899999999999988888889999999999987

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=93.21  E-value=0.053  Score=43.73  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=21.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+..++.+.|++|+|||+|+.++..
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            4455799999999999999988763

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.21  E-value=0.14  Score=44.68  Aligned_cols=25  Identities=20%  Similarity=0.175  Sum_probs=22.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+++-|.+.||+|+|||+|+.++.+
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHH
Confidence            4567799999999999999999975

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.18  E-value=0.055  Score=45.81  Aligned_cols=23  Identities=17%  Similarity=0.209  Sum_probs=20.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..|+|+|++++|||||...|...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999753

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.17  E-value=0.035  Score=44.08  Aligned_cols=21  Identities=19%  Similarity=0.003  Sum_probs=19.0

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.+.|++|+||||++.+|..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999874

>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=93.16  E-value=0.05  Score=45.00  Aligned_cols=21  Identities=14%  Similarity=0.297  Sum_probs=19.5

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.|.|++|+|||||+.++.+
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~   66 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWE   66 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999974

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.16  E-value=0.049  Score=42.77  Aligned_cols=21  Identities=38%  Similarity=0.452  Sum_probs=19.2

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|++.|..||||||+++.|.
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~   23 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLT   23 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHH
Confidence            468999999999999999986

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=93.11  E-value=0.061  Score=44.27  Aligned_cols=25  Identities=24%  Similarity=0.247  Sum_probs=21.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....++.+.|++|+|||||+.++..
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999999974

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.08  E-value=0.039  Score=48.78  Aligned_cols=20  Identities=15%  Similarity=0.087  Sum_probs=18.1

Q ss_pred             cceEEECCCCCChHHHHhHH
Q psy1174          18 SYPGTIGHVAHGKSTVVKAI   37 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L   37 (182)
                      -.++|+|++|||||||+.+|
T Consensus        40 e~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           40 RSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             SEEEEEESTTSSHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHH
Confidence            45899999999999999994

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=93.08  E-value=0.062  Score=45.85  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=20.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...+|+++|++|+||||+..+|.+
T Consensus        23 ~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           23 YRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHH
Confidence            345799999999999999998864

>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=93.06  E-value=0.058  Score=44.13  Aligned_cols=23  Identities=22%  Similarity=0.223  Sum_probs=20.3

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...+.+.|++|+|||||+.++..
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            35789999999999999999974

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=92.99  E-value=0.052  Score=53.27  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||++.|.|..
T Consensus      1060 e~v~ivG~sGsGKSTl~~~l~g~~ 1083 (1284)
T 3g5u_A         1060 QTLALVGSSGCGKSTVVQLLERFY 1083 (1284)
T ss_dssp             SEEEEECSSSTTHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCc
Confidence            358999999999999999998653

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=92.97  E-value=0.064  Score=42.97  Aligned_cols=24  Identities=17%  Similarity=0.255  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++.+.|++|+|||+|+.+|..
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999999963

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=92.95  E-value=0.052  Score=46.13  Aligned_cols=20  Identities=25%  Similarity=0.419  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .++++|+.|+|||||+++|.
T Consensus        28 ~~~i~G~nG~GKttll~ai~   47 (359)
T 2o5v_A           28 VTGIYGENGAGKTNLLEAAY   47 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHH
Confidence            57999999999999999996

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=92.94  E-value=0.056  Score=42.64  Aligned_cols=23  Identities=17%  Similarity=0.033  Sum_probs=20.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...|+|+|++++|||||.-.|..
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~   56 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQ   56 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999999974

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=92.91  E-value=0.057  Score=43.05  Aligned_cols=26  Identities=15%  Similarity=0.033  Sum_probs=22.0

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+...+.+.|++|+|||+|+.++..
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~   86 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAE   86 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHH
Confidence            34556899999999999999999963

>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=92.75  E-value=0.039  Score=43.77  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=20.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....+.+.|++|+|||+|+.+|..
T Consensus        43 ~~~~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           43 IPKGVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             CCSCCCCBCSSCSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCcHHHHHHHHHH
Confidence            345688999999999999999973

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=92.71  E-value=0.064  Score=43.77  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=20.4

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ++++.+.+.|++|+|||+|+.++..
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3445677789999999999999973

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.69  E-value=0.053  Score=44.80  Aligned_cols=21  Identities=19%  Similarity=0.186  Sum_probs=19.2

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.+.|++|+||||++.+|.+
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~   68 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALAR   68 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999975

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=92.62  E-value=0.056  Score=39.17  Aligned_cols=24  Identities=17%  Similarity=-0.022  Sum_probs=20.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...+|.+.|++|+|||+++.++..
T Consensus        26 ~~~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           26 RTSPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             CSSCEEEEEETTCCHHHHHGGGCC
T ss_pred             CCCcEEEECCCCccHHHHHHHHHH
Confidence            346799999999999999998864

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.53  E-value=0.078  Score=42.08  Aligned_cols=26  Identities=19%  Similarity=0.121  Sum_probs=21.0

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHh
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .......|++.|..||||||+++.|.
T Consensus        17 ~~~~~~~i~~~G~~g~GKst~~~~l~   42 (223)
T 3ld9_A           17 QGPGSMFITFEGIDGSGKTTQSHLLA   42 (223)
T ss_dssp             --CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            33455679999999999999999886

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=92.39  E-value=0.081  Score=43.77  Aligned_cols=25  Identities=24%  Similarity=0.097  Sum_probs=21.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...|.+.|++|+|||+|+.++..
T Consensus        43 ~~~~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           43 TPWRGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCCceEEEECCCCccHHHHHHHHHH
Confidence            3456799999999999999999974

>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC transporter ATPase domain-like; HET: DNA ADP; 2.70A {Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*

Probab=92.39  E-value=0.062  Score=45.35  Aligned_cols=20  Identities=30%  Similarity=0.453  Sum_probs=17.9

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+|+.|+||||+++||.
T Consensus        27 l~vi~G~NGaGKT~ileAI~   46 (371)
T 3auy_A           27 IVAIIGENGSGKSSIFEAVF   46 (371)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            35799999999999999985

>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=92.28  E-value=0.085  Score=43.39  Aligned_cols=25  Identities=28%  Similarity=0.187  Sum_probs=21.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+...|.+.|++|+|||+|+.++..
T Consensus        49 ~~~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           49 KPTSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCCCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHH
Confidence            3456799999999999999999973

>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=92.28  E-value=0.084  Score=41.35  Aligned_cols=24  Identities=21%  Similarity=0.137  Sum_probs=20.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +...-|++-|..||||||+++.|.
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            345678999999999999999985

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=92.28  E-value=0.071  Score=41.24  Aligned_cols=22  Identities=23%  Similarity=0.092  Sum_probs=19.4

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .-|.+.|++|+|||||.-.|+.
T Consensus        17 ~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4589999999999999999973

>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=92.11  E-value=0.08  Score=44.94  Aligned_cols=24  Identities=25%  Similarity=0.153  Sum_probs=20.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +...+|.++|..+|||||++..+-
T Consensus        31 ~~~~killlG~~~SGKST~~kq~~   54 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQMR   54 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHHH
Confidence            345689999999999999999874

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=92.01  E-value=0.09  Score=43.36  Aligned_cols=23  Identities=22%  Similarity=0.187  Sum_probs=20.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++.+.|++|+|||+|+.+|..
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            46899999999999999999864

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=92.00  E-value=0.071  Score=49.70  Aligned_cols=23  Identities=22%  Similarity=0.138  Sum_probs=20.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++|+|+.|+|||||++++.+
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iag  598 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTAL  598 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHh
Confidence            34589999999999999999875

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.00  E-value=0.097  Score=42.78  Aligned_cols=22  Identities=18%  Similarity=0.181  Sum_probs=19.6

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+.+.|++|+|||||+.+|.+
T Consensus        59 ~~~ll~G~~G~GKT~la~~la~   80 (353)
T 1sxj_D           59 PHMLFYGPPGTGKTSTILALTK   80 (353)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4489999999999999999974

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=91.99  E-value=0.065  Score=48.79  Aligned_cols=17  Identities=24%  Similarity=0.247  Sum_probs=15.4

Q ss_pred             cceEEECCCCCChHHHH
Q psy1174          18 SYPGTIGHVAHGKSTVV   34 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl   34 (182)
                      -.++|+|+.|||||||+
T Consensus        45 e~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           45 KLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             SEEEEECSTTSSHHHHH
T ss_pred             CEEEEECCCCCCHHHHh
Confidence            45899999999999996

>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=91.99  E-value=0.073  Score=45.06  Aligned_cols=37  Identities=11%  Similarity=0.124  Sum_probs=33.8

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCC
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      ...+.+.||+|++.|..........+|++|+|+|..+
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~  228 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSD  228 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGG
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECcc
Confidence            4678999999999999988888899999999999987

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=91.86  E-value=0.11  Score=43.42  Aligned_cols=23  Identities=22%  Similarity=0.226  Sum_probs=20.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..+|.+.|++|+|||+++.+|.
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia   72 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLA   72 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHH
Confidence            45679999999999999999996

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=91.85  E-value=0.11  Score=42.59  Aligned_cols=24  Identities=25%  Similarity=0.088  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +..+|.+.|++|+|||+|+.++..
T Consensus        54 ~~~~vll~G~~GtGKT~la~~ia~   77 (338)
T 3pfi_A           54 CLDHILFSGPAGLGKTTLANIISY   77 (338)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHH
Confidence            445799999999999999999963

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=91.82  E-value=0.073  Score=47.05  Aligned_cols=21  Identities=19%  Similarity=0.196  Sum_probs=19.4

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++|+|++|+|||||+.+|.+
T Consensus       283 i~~i~G~~GsGKSTLl~~l~g  303 (525)
T 1tf7_A          283 IILATGATGTGKTLLVSRFVE  303 (525)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            589999999999999999985

>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=91.80  E-value=0.092  Score=41.96  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ....|++.|..||||||+++.|.
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~   48 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVV   48 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999999985

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=91.76  E-value=0.092  Score=49.17  Aligned_cols=24  Identities=21%  Similarity=0.062  Sum_probs=20.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...++|+|+.|+|||||++++.+
T Consensus       606 ~g~i~~ItGpNGsGKSTlLr~iag  629 (800)
T 1wb9_A          606 QRRMLIITGPNMGGKSTYMRQTAL  629 (800)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCChHHHHHHHHH
Confidence            345689999999999999999875

---

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	182
d2qn6a3	205	c.37.1.8 (A:2-206) Initiation factor eIF2 gamma su	1e-15
d1f60a3	239	c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N	2e-14
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	2e-14
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	2e-05
d1jnya3	224	c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N	2e-13
d1kk1a3	195	c.37.1.8 (A:6-200) Initiation factor eIF2 gamma su	4e-10
d1n0ua2	341	c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-	1e-08
d1zunb3	222	c.37.1.8 (B:16-237) Sulfate adenylate transferase	1e-08
d1d2ea3	196	c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu),	9e-08
d1r5ba3	245	c.37.1.8 (A:215-459) Eukaryotic peptide chain rele	3e-06
d2bv3a2	276	c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-t	8e-06
d1wb1a4	179	c.37.1.8 (A:1-179) Elongation factor SelB, N-termi	6e-04

>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 = 69.6 bits (169), Expect = 1e-15
 Identities = 51/119 (42%), Positives = 75/119 (63%), Gaps = 9/119 (7%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+V+AI+G+ T +   EL+R +TIKLGYA   I  C  E C +P  Y++
Sbjct: 12  GVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVC--ESCKKPEAYVT 69

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN 139
             S K               + +R +SF+D PGH++LMATML+GAA+MD A+L++  + 
Sbjct: 70  EPSCK-------SCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANE 121

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 239

class: 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]

 Score = 67.0 bits (163), Expect = 2e-14
 Identities = 23/115 (20%), Positives = 39/115 (33%), Gaps = 9/115 (7%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
             IGHV  GKST    +        K  +E            K      +   + A  + 
Sbjct: 10  VVIGHVDSGKSTTTGHLIYKCGGIDKRTIE---------KFEKEAAELGKGSFKYAWVLD 60

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
               + +    +  +          V+ +D PGH   +  M+ G +  D A+L+I
Sbjct: 61  KLKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILII 115

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

 Score = 65.8 bits (160), Expect = 2e-14
 Identities = 36/129 (27%), Positives = 47/129 (36%), Gaps = 51/129 (39%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKN--------------ELERNITIKLGYANAKIYK 66
           GTIGHV HGK+T+  A++ V      N              E  R ITI   +   +  K
Sbjct: 7   GTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK 66

Query: 67  CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
                                                RH S VDCPGH   +  M+ GAA
Sbjct: 67  -------------------------------------RHYSHVDCPGHADYIKNMITGAA 89

Query: 127 VMDAALLLI 135
            MD A+L++
Sbjct: 90  QMDGAILVV 98

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

 Score = 40.7 bits (95), Expect = 2e-05
 Identities = 14/28 (50%), Positives = 19/28 (67%)

Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
            VDCPGH   +  M+ GAA MD A+L++
Sbjct: 71  HVDCPGHADYIKNMITGAAQMDGAILVV 98

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 224

class: 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]

 Score = 64.1 bits (155), Expect = 2e-13
 Identities = 28/137 (20%), Positives = 45/137 (32%), Gaps = 23/137 (16%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
             IGHV HGKST+V  +                 +  G+ + K  K   E   +      
Sbjct: 7   IVIGHVDHGKSTLVGRL----------------LMDRGFIDEKTVKEAEEAAKKLGKESE 50

Query: 81  GRSNKDDSFPCLRS-SCTGRFQLV------RHVSFVDCPGHDILMATMLNGAAVMDAALL 133
             +   D     R    T     +         + +D PGH   +  M+ GA+  DAA+L
Sbjct: 51  KFAFLLDRLKEERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAIL 110

Query: 134 LIGCDNAAKTPEIVDCP 150
           ++          +    
Sbjct: 111 VVSAKKGEYEAGMSVEG 127

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]} 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: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

 Score = 54.2 bits (129), Expect = 4e-10
 Identities = 49/132 (37%), Positives = 70/132 (53%), Gaps = 14/132 (10%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G +GHV HGK+T+ KA++GV T     EL R ITIK+G+A+A+I +C N      +    
Sbjct: 9   GMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVC- 67

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA 140
                          C    + VR VSF+D PGH+ LM TML GA++MD A+L+I  +  
Sbjct: 68  -------------PYCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEP 114

Query: 141 AKTPEIVDCPGH 152
              P+  +    
Sbjct: 115 CPRPQTREHLMA 126

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 341

class: 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]

 Score = 51.3 bits (122), Expect = 1e-08
 Identities = 28/132 (21%), Positives = 47/132 (35%), Gaps = 34/132 (25%)

Query: 21  GTIGHVAHGKSTVVKAI---SGV----------QTVRFKNELERNITIKLGYANAKIYKC 67
             I HV HGKST+  ++   +G+           T   K+E ER ITIK           
Sbjct: 21  SVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTA-----ISL 75

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
            +E        I  +++ +                   ++ +D PGH    + +     V
Sbjct: 76  YSEMSDEDVKEIKQKTDGNS----------------FLINLIDSPGHVDFSSEVTAALRV 119

Query: 128 MDAALLLIGCDN 139
            D AL+++    
Sbjct: 120 TDGALVVVDTIE 131

>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]} Length = 222

class: 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]

 Score = 50.2 bits (119), Expect = 1e-08
 Identities = 20/118 (16%), Positives = 35/118 (29%), Gaps = 7/118 (5%)

Query: 22  TIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG 81
           T G+V  GKST++  +     + +++ LE                               
Sbjct: 14  TCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQ 73

Query: 82  RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN 139
                     +  +        R     D PGH+     M  GA+  D A++L+    
Sbjct: 74  G-------ITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARY 124

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]} Length = 196

class: 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]

 Score = 47.7 bits (113), Expect = 9e-08
 Identities = 28/132 (21%), Positives = 43/132 (32%), Gaps = 50/132 (37%)

Query: 21  GTIGHVAHGKSTVVKAISGV-------------QTVRFKNELERNITIKLGYANAKIYKC 67
           GTIGHV HGK+T+  AI+ +             +      E  R ITI   +        
Sbjct: 7   GTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAAR 66

Query: 68  DNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAV 127
                                                H +  DCPGH   +  M+ G A 
Sbjct: 67  -------------------------------------HYAHTDCPGHADYVKNMITGTAP 89

Query: 128 MDAALLLIGCDN 139
           +D  +L++  ++
Sbjct: 90  LDGCILVVAAND 101

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 245

class: 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]

 Score = 43.7 bits (102), Expect = 3e-06
 Identities = 26/118 (22%), Positives = 44/118 (37%), Gaps = 9/118 (7%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
             IGHV  GKST+   I  +  +  K  +E            +  K   ++    +  + 
Sbjct: 28  VFIGHVDAGKSTLGGNILFLTGMVDKRTME---------KIEREAKEAGKESWYLSWALD 78

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD 138
             S + +    +           R  S +D PGH   +  M+NGA+  D  +L+I   
Sbjct: 79  STSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISAR 136

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 276

class: 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]

 Score = 42.8 bits (100), Expect = 8e-06
 Identities = 20/119 (16%), Positives = 34/119 (28%), Gaps = 24/119 (20%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITI-KLGYANAKIYKCDNEKCSRPACYI 79
           G   H+  GK+T  + I           L     I K+G  +      D           
Sbjct: 10  GIAAHIDAGKTTTTERI-----------LYYTGRIHKIGEVHEGAATMD----FMEQERE 54

Query: 80  SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD 138
            G +       C              ++ +D PGH      +     V+D A+++    
Sbjct: 55  RGITITAAVTTCFWKD--------HRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSS 105

>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 = 36.6 bits (83), Expect = 6e-04
 Identities = 12/103 (11%), Positives = 26/103 (25%)

Query: 21  GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
           G  GH+ HGK+T+ K ++ + +    ++L  +    +                       
Sbjct: 9   GIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPG 68

Query: 81  GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLN 123
                                +          G  +L+    N
Sbjct: 69  HADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFN 111

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	182
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.96
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.95
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.94
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.93
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.93
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.92
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.92
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.91
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.91
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.9
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.9
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.86
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.83
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.52
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.43
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.4
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.4
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.34
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.24
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.23
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.23
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.22
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.18
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.15
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.15
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.14
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.12
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.11
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.1
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.09
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.07
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.07
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.05
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.04
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.01
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	98.99
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	98.98
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	98.98
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	98.96
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	98.95
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	98.93
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.92
d2fh5b1	207	Signal recognition particle receptor beta-subunit	98.91
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	98.91
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	98.9
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	98.88
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.87
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	98.87
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	98.86
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	98.84
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	98.83
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.83
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	98.82
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	98.77
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	98.76
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	98.75
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	98.73
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	98.72
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	98.72
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	98.71
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	98.7
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	98.7
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	98.69
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	98.68
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	98.67
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	98.67
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	98.65
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	98.64
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	98.62
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.6
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.59
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	98.59
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	98.58
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	98.56
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.54
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.53
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.53
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	98.51
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	98.51
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.48
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.48
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.45
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.42
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.32
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.28
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	98.27
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.26
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.26
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.26
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.21
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.21
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	98.1
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.06
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.96
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.55
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.53
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.46
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.42
d1okkd2	207	GTPase domain of the signal recognition particle r	97.38
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.32
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.29
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.25
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.23
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.2
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.03
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.02
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.99
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.94
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.89
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.87
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.86
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.85
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.84
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.83
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.82
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	96.79
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.78
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.78
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.77
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.74
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.73
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.73
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.71
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.71
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.7
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.68
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.67
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.66
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.66
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.66
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.65
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.63
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.62
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.62
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.6
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.58
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.58
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.58
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.57
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.51
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.46
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.44
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.43
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.43
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.41
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.39
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.37
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.36
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.33
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.29
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.29
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.28
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.22
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.2
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.16
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.15
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.14
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.12
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.05
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.0
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.91
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.89
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.85
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.83
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.79
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.71
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.61
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.55
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.5
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	95.48
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.47
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.41
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.4
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.37
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.15
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.15
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.06
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.04
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.02
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.01
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.86
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.79
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.61
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.59
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.59
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.57
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	94.51
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.48
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.36
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.35
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.29
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	94.26
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	94.24
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	94.24
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.65
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.57
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.49
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	93.45
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	93.38
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.35
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.33
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.21
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.2
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	93.19
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.13
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	93.09
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	92.97
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.75
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	92.64
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.33
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	91.74
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	91.68
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	91.63
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	91.62
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	91.38
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	91.1
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.88
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.8
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.48
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.41
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.36
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.33
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	90.16
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	89.91
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	89.62
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	89.5
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	89.43
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.25
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	88.99
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	88.93
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	88.91
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	88.3
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	88.2
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	87.78
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	87.78
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	87.54
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	87.5
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	87.5
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	86.99
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	86.5
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	85.42
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	85.1
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	83.29
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	82.55
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	81.99
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	81.75
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	80.89
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	80.39

>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=99.96  E-value=2.5e-30  Score=204.85  Aligned_cols=115  Identities=32%  Similarity=0.493  Sum_probs=95.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC--------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCccccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV--------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS   80 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~--------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (182)
                      +|++||+++||+|||||||+++|+..              ..++.++|++||+|++..+..+.                 
T Consensus         1 k~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~-----------------   63 (204)
T d2c78a3           1 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYE-----------------   63 (204)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEE-----------------
T ss_pred             CCCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEE-----------------
Confidence            57899999999999999999999721              12466899999999998775321                 


Q ss_pred             CCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----
Q psy1174          81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----  155 (182)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----  155 (182)
                                  |.+        ++++|||||||.+|..++++|++.+|+|||||||.+| ++.||++++.++..     
T Consensus        64 ------------~~~--------~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~G-v~~qt~~~~~~~~~~gi~~  122 (204)
T d2c78a3          64 ------------TAK--------RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADG-PMPQTREHILLARQVGVPY  122 (204)
T ss_dssp             ------------CSS--------CEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTC-CCHHHHHHHHHHHHTTCCC
T ss_pred             ------------eCC--------eEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCC-CcHHHHHHHHHHHHcCCCe
Confidence                        233        8899999999999999999999999999999999999 99999997765522     


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ...++||+|.++
T Consensus       123 iiv~iNK~D~~~  134 (204)
T d2c78a3         123 IVVFMNKVDMVD  134 (204)
T ss_dssp             EEEEEECGGGCC
T ss_pred             EEEEEEecccCC
Confidence            224689999764

>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=99.95  E-value=6.3e-29  Score=195.90  Aligned_cols=115  Identities=28%  Similarity=0.447  Sum_probs=92.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC-------------ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ-------------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~-------------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      +|++||+++||+|||||||+++|++..             .+....|++||+|++..+..+.                  
T Consensus         1 kp~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~------------------   62 (196)
T d1d2ea3           1 KPHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYS------------------   62 (196)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEE------------------
T ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEE------------------
Confidence            578999999999999999999997421             1244678899999987664311                  


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----H
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----M  156 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~  156 (182)
                                 +.+        ++++++|||||.+|.+++.+|++.+|+|||||||.+| ++.||++++.++..     .
T Consensus        63 -----------~~~--------~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G-~~~QT~~~~~~a~~~~~~~i  122 (196)
T d1d2ea3          63 -----------TAA--------RHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDG-PMPQTREHLLLARQIGVEHV  122 (196)
T ss_dssp             -----------CSS--------CEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTC-SCHHHHHHHHHHHHTTCCCE
T ss_pred             -----------ece--------eeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCC-CchhHHHHHHHHHHhcCCcE
Confidence                       122        8899999999999999999999999999999999999 99999996554322     1


Q ss_pred             HhHhccchhhh
Q psy1174         157 ATMLNGAAVMD  167 (182)
Q Consensus       157 ~~~~nk~d~~~  167 (182)
                      ..++||+|.++
T Consensus       123 Iv~iNK~D~~~  133 (196)
T d1d2ea3         123 VVYVNKADAVQ  133 (196)
T ss_dssp             EEEEECGGGCS
T ss_pred             EEEEecccccc
Confidence            24689999763

>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=99.94  E-value=1.5e-28  Score=199.11  Aligned_cols=117  Identities=25%  Similarity=0.330  Sum_probs=93.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh---cCC-------------------------ccchhhHhhhceeeeeccccceee
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS---GVQ-------------------------TVRFKNELERNITIKLGYANAKIY   65 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~---g~~-------------------------~~~~~~e~~~g~t~~~~~~~~~~~   65 (182)
                      +++++||+++||+|||||||+++|+   |..                         .|..+.|++||+|++.++..+.  
T Consensus         3 ~k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~--   80 (239)
T d1f60a3           3 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFE--   80 (239)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEE--
T ss_pred             CCCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEec--
Confidence            5677899999999999999999996   322                         2456789999999988764321  


Q ss_pred             ecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----
Q psy1174          66 KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----  141 (182)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----  141 (182)
                                                 +.        .++++|||||||.+|..+|++|++++|+|||||||.+|.    
T Consensus        81 ---------------------------~~--------~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g  125 (239)
T d1f60a3          81 ---------------------------TP--------KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAG  125 (239)
T ss_dssp             ---------------------------CS--------SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHH
T ss_pred             ---------------------------cC--------CEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccc
Confidence                                       22        289999999999999999999999999999999999872    


Q ss_pred             --ccccccccchhhHH-----HHhHhccchhhh
Q psy1174         142 --KTPEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus       142 --~~~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                        +++||++|+.++..     ..+++||+|.++
T Consensus       126 ~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~~~  158 (239)
T d1f60a3         126 ISKDGQTREHALLAFTLGVRQLIVAVNKMDSVK  158 (239)
T ss_dssp             TCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGT
T ss_pred             cCchHhHHHHHHHHHHcCCCeEEEEEECCCCCC
Confidence              46899995533321     235799999875

>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=99.93  E-value=6e-26  Score=178.58  Aligned_cols=147  Identities=35%  Similarity=0.626  Sum_probs=90.4

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL   92 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (182)
                      ..+|++||+|+||+|||||||+++|++...++...+.++..+...+.....+....  .+..+..+......       .
T Consensus         4 ~~~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~-------~   74 (205)
T d2qn6a3           4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCE--SCKKPEAYVTEPSC-------K   74 (205)
T ss_dssp             CCCCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECT--TSCTTTTEESSSCC-------G
T ss_pred             CCCCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhh--hhhhhheeeecccc-------e
Confidence            35788999999999999999999999877766666666666665554433321111  11111112111111       1


Q ss_pred             CCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHH-----HHhHhccchhhh
Q psy1174          93 RSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDIL-----MATMLNGAAVMD  167 (182)
Q Consensus        93 ~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il-----~~~~~nk~d~~~  167 (182)
                      ...........+++++||||||.+|.+++++|+..+|++|+||||.+|..+.||++++..+..     ...++||+|+++
T Consensus        75 ~~~~~~~~~~~r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl~~  154 (205)
T d2qn6a3          75 SCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVS  154 (205)
T ss_dssp             GGTCCSCCEEEEEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGGSC
T ss_pred             eeeeeccccceEEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCCcc
Confidence            111122223347899999999999999999999999999999999999338899995543321     124589999875


Q ss_pred             H
Q psy1174         168 A  168 (182)
Q Consensus       168 ~  168 (182)
                      .
T Consensus       155 ~  155 (205)
T d2qn6a3         155 K  155 (205)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=99.93  E-value=1.3e-26  Score=185.17  Aligned_cols=115  Identities=27%  Similarity=0.369  Sum_probs=79.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cCCc-------------------------cchhhHhhhceeeeeccccceeee
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GVQT-------------------------VRFKNELERNITIKLGYANAKIYK   66 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~~~-------------------------~~~~~e~~~g~t~~~~~~~~~~~~   66 (182)
                      +|++||+++||+|||||||+++|+   |...                         +..+.|++||+|+......+    
T Consensus         1 kp~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~----   76 (224)
T d1jnya3           1 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRF----   76 (224)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEE----
T ss_pred             CCccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEE----
Confidence            578999999999999999999996   3221                         23356677888777655321    


Q ss_pred             cCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc-----
Q psy1174          67 CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA-----  141 (182)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~-----  141 (182)
                                               ++.+        ++++|||||||.+|..+|.+|++.+|+|||||||.+|.     
T Consensus        77 -------------------------~~~~--------~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~  123 (224)
T d1jnya3          77 -------------------------ETKK--------YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGM  123 (224)
T ss_dssp             -------------------------ECSS--------CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHH
T ss_pred             -------------------------ecCC--------ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccc
Confidence                                     1222        89999999999999999999999999999999999982     


Q ss_pred             -ccccccccchhhHH-----HHhHhccchhh
Q psy1174         142 -KTPEIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus       142 -~~~qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                       +++||+|++..+..     ...++||+|..
T Consensus       124 ~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~  154 (224)
T d1jnya3         124 SVEGQTREHIILAKTMGLDQLIVAVNKMDLT  154 (224)
T ss_dssp             STTCHHHHHHHHHHHTTCTTCEEEEECGGGS
T ss_pred             cccchhHHHHHHHHHhCCCceEEEEEcccCC
Confidence             36788884322211     22459999975

>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=99.92  E-value=9.9e-26  Score=175.72  Aligned_cols=142  Identities=36%  Similarity=0.558  Sum_probs=100.3

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCccc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL   92 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (182)
                      ++++.+||+++||+|||||||+++|++...++...+.++|+|.+.++..............       .        ...
T Consensus         1 ~~~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~-------~--------~~~   65 (195)
T d1kk1a3           1 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRY-------S--------TSP   65 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCE-------E--------SSS
T ss_pred             CCCCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhc-------c--------cee
Confidence            3678889999999999999999999998888888888999998887754333221110000       0        000


Q ss_pred             CCCC-CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHH-----HhHhccchhh
Q psy1174          93 RSSC-TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILM-----ATMLNGAAVM  166 (182)
Q Consensus        93 ~~~~-~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~-----~~~~nk~d~~  166 (182)
                      .... .......++++|+|||||.+|..++.+|++.+|++++|||+.+|....||++++..+..+     ..++||+|..
T Consensus        66 ~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~  145 (195)
T d1kk1a3          66 VCPYCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELV  145 (195)
T ss_dssp             BCTTTCCBCEEEEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGS
T ss_pred             eeeeeeeeecCceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccch
Confidence            0000 111233478999999999999999999999999999999999993366788855433221     2459999987


Q ss_pred             hHH
Q psy1174         167 DAA  169 (182)
Q Consensus       167 ~~~  169 (182)
                      +..
T Consensus       146 d~~  148 (195)
T d1kk1a3         146 DKE  148 (195)
T ss_dssp             CHH
T ss_pred             hhH
Confidence            643

>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=99.92  E-value=2.7e-26  Score=188.61  Aligned_cols=112  Identities=18%  Similarity=0.192  Sum_probs=95.1

Q ss_pred             CcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISG   81 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (182)
                      +|||+|+||+|||||||+++|+   |.            .+|+.++|++||+|+..++..+                   
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~-------------------   62 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPL-------------------   62 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEE-------------------
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccc-------------------
Confidence            5899999999999999999996   22            1456789999999998877532                   


Q ss_pred             CCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHH
Q psy1174          82 RSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMA  157 (182)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~  157 (182)
                                .|.+        +++++||||||.+|..++.+|++.+|+||+||||.+| ++.||+++++++    +...
T Consensus        63 ----------~~~~--------~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~G-v~~~t~~~~~~~~~~~~p~~  123 (267)
T d2dy1a2          63 ----------LFRG--------HRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAG-VQVGTERAWTVAERLGLPRM  123 (267)
T ss_dssp             ----------EETT--------EEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTC-SCHHHHHHHHHHHHTTCCEE
T ss_pred             ----------cccc--------cceeEEccCchhhhhhhhhhhhcccCceEEEeeccCC-ccchhHHHHHhhhhcccccc
Confidence                      2333        8999999999999999999999999999999999999 999999977654    3445


Q ss_pred             hHhccchhh
Q psy1174         158 TMLNGAAVM  166 (182)
Q Consensus       158 ~~~nk~d~~  166 (182)
                      .++||+|..
T Consensus       124 i~iNk~D~~  132 (267)
T d2dy1a2         124 VVVTKLDKG  132 (267)
T ss_dssp             EEEECGGGC
T ss_pred             ccccccccc
Confidence            789999964

>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=99.91  E-value=1.2e-26  Score=191.50  Aligned_cols=115  Identities=20%  Similarity=0.302  Sum_probs=91.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh---cC------------CccchhhHhhhceeeeeccccceeeecCCCCCCCCcccc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS---GV------------QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI   79 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~---g~------------~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~   79 (182)
                      ..+|||+++||+|||||||+++|+   |.            ..|..++|++||+|+..+...                  
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~------------------   65 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTT------------------   65 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEE------------------
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceee------------------
Confidence            457899999999999999999997   22            145677899999999887743                  


Q ss_pred             cCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HH
Q psy1174          80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----IL  155 (182)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il  155 (182)
                                 +.|.+        +++||+|||||.+|..++..+++.+|+||+||||.+| ++.||+.+++++    ++
T Consensus        66 -----------~~~~~--------~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~G-v~~~T~~~w~~a~~~~lP  125 (276)
T d2bv3a2          66 -----------CFWKD--------HRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQG-VEPQSETVWRQAEKYKVP  125 (276)
T ss_dssp             -----------EEETT--------EEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTS-SCHHHHHHHHHHHTTTCC
T ss_pred             -----------eccCC--------eEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCC-cchhHHHHHHHHHHcCCC
Confidence                       22344        8999999999999999999999999999999999999 999999877654    66


Q ss_pred             HHhHhccchhhh
Q psy1174         156 MATMLNGAAVMD  167 (182)
Q Consensus       156 ~~~~~nk~d~~~  167 (182)
                      ..+|+||.|...
T Consensus       126 ~i~fINKmDr~~  137 (276)
T d2bv3a2         126 RIAFANKMDKTG  137 (276)
T ss_dssp             EEEEEECTTSTT
T ss_pred             EEEEEecccccc
Confidence            779999999764

>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=99.91  E-value=1.6e-25  Score=179.39  Aligned_cols=64  Identities=20%  Similarity=0.297  Sum_probs=55.2

Q ss_pred             cceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhHHH-----HhHhccchhhh
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILM-----ATMLNGAAVMD  167 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~il~-----~~~~nk~d~~~  167 (182)
                      ++++++||||||.+|..+|.+|++.+|+|+|||||.+| +++||++++.++..+     ..++||.|.++
T Consensus        88 ~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G-~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~~~  156 (222)
T d1zunb3          88 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYG-VQTQTRRHSYIASLLGIKHIVVAINKMDLNG  156 (222)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTC-SCHHHHHHHHHHHHTTCCEEEEEEECTTTTT
T ss_pred             ceEEEEEeccchhhhhhhhccccccCceEEEEeccccC-cccchHHHHHHHHHcCCCEEEEEEEcccccc
Confidence            48999999999999999999999999999999999999 999999955443222     25699999875

>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=99.90  E-value=3.4e-26  Score=193.85  Aligned_cols=135  Identities=21%  Similarity=0.222  Sum_probs=91.2

Q ss_pred             ccccc-CCCcceEEECCCCCChHHHHhHHh---cCC----------ccchhhHhhhceeeeeccccceeeecCCCCCCCC
Q psy1174          10 NWVSN-EISSYPGTIGHVAHGKSTVVKAIS---GVQ----------TVRFKNELERNITIKLGYANAKIYKCDNEKCSRP   75 (182)
Q Consensus        10 ~~~~~-~~~~~V~viG~~~sGKSTLl~~L~---g~~----------~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~   75 (182)
                      ++|++ ..+|||+|+||+|||||||+++|+   |..          .|..++|.+||+|++.+...+.. +.....    
T Consensus         9 ~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~-~~~~~~----   83 (341)
T d1n0ua2           9 SLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYS-EMSDED----   83 (341)
T ss_dssp             HHHHCGGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEE-ECCHHH----
T ss_pred             HHhcCcccCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEe-ccCccc----
Confidence            34544 456799999999999999999997   322          35678899999999877654321 110000    


Q ss_pred             cccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhhH-
Q psy1174          76 ACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDI-  154 (182)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~i-  154 (182)
                              .........        ...+.+++||||||.+|..++.+|++.+|+|||||||.+| ++.||+++++++. 
T Consensus        84 --------~~~~~~~~~--------~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eG-v~~qT~~~~~~a~~  146 (341)
T d1n0ua2          84 --------VKEIKQKTD--------GNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEG-VCVQTETVLRQALG  146 (341)
T ss_dssp             --------HHHCSSCCC--------SSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTB-SCHHHHHHHHHHHH
T ss_pred             --------ccchhcccc--------ccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccC-cchhHHHHHHHHHH
Confidence                    000000001        1237899999999999999999999999999999999999 9999999887763 


Q ss_pred             ---HHHhHhccchhh
Q psy1174         155 ---LMATMLNGAAVM  166 (182)
Q Consensus       155 ---l~~~~~nk~d~~  166 (182)
                         ....++||+|..
T Consensus       147 ~~~p~i~viNKiDr~  161 (341)
T d1n0ua2         147 ERIKPVVVINKVDRA  161 (341)
T ss_dssp             TTCEEEEEEECHHHH
T ss_pred             cCCCeEEEEECcccc
Confidence               344779999954

>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=99.90  E-value=5.2e-25  Score=178.62  Aligned_cols=118  Identities=25%  Similarity=0.309  Sum_probs=68.9

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHh---cCCccc-------------------------hhhHhhhceeeeeccccce
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAIS---GVQTVR-------------------------FKNELERNITIKLGYANAK   63 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~---g~~~~~-------------------------~~~e~~~g~t~~~~~~~~~   63 (182)
                      +..++++||+|+||+|||||||+++|+   |....+                         .+.|+++|++++.+...  
T Consensus        19 ~~~k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~--   96 (245)
T d1r5ba3          19 MYGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAY--   96 (245)
T ss_dssp             HSCCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCE--
T ss_pred             hcCCCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCccccccccc--
Confidence            345788899999999999999999996   433221                         12333344444332211  


Q ss_pred             eeecCCCCCCCCcccccCCCCCCCCCcccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc--
Q psy1174          64 IYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA--  141 (182)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~--  141 (182)
                                                 +.        ...++++++|||||.+|..++++|++.+|+|+|||||.+|.  
T Consensus        97 ---------------------------~~--------~~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~  141 (245)
T d1r5ba3          97 ---------------------------FE--------TEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFE  141 (245)
T ss_dssp             ---------------------------EE--------CSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHH
T ss_pred             ---------------------------cc--------cccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccC
Confidence                                       11        23388999999999999999999999999999999999982  


Q ss_pred             ----ccccccccchhhHH-----HHhHhccchhh
Q psy1174         142 ----KTPEIVDCPGHDIL-----MATMLNGAAVM  166 (182)
Q Consensus       142 ----~~~qt~e~l~~~il-----~~~~~nk~d~~  166 (182)
                          +++||+|++..+..     ...++||+|.+
T Consensus       142 ~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~~  175 (245)
T d1r5ba3         142 AGFERGGQTREHAVLARTQGINHLVVVINKMDEP  175 (245)
T ss_dssp             HTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTST
T ss_pred             CccccccchHHHHHHHHHcCCCeEEEEEEcCCCC
Confidence                25699995533322     12568999975

>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=99.86  E-value=7e-24  Score=169.25  Aligned_cols=64  Identities=19%  Similarity=0.320  Sum_probs=55.5

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhhH
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMDA  168 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~~  168 (182)
                      .+++|+|||||.+|..++..++..+|++|+||||.+| ++.|+++++..+    ++...++||+|..+.
T Consensus        70 ~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g-~~~~~~~~~~~~~~~~~p~iivlNK~D~~~~  137 (227)
T d1g7sa4          70 PGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEG-FKPQTQEALNILRMYRTPFVVAANKIDRIHG  137 (227)
T ss_dssp             CEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTC-CCHHHHHHHHHHHHTTCCEEEEEECGGGSTT
T ss_pred             cccccccccceecccccchhcccccceEEEEEecccC-cccchhHHHHHhhcCCCeEEEEEECccCCCc
Confidence            7899999999999999999999999999999999999 999999966543    334467999998753

>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=99.83  E-value=1.3e-21  Score=150.15  Aligned_cols=116  Identities=22%  Similarity=0.399  Sum_probs=80.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC----ccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ----TVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPC   91 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~----~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (182)
                      ..+||+++||+|||||||+++|++..    .++...+..+|++..........                           
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---------------------------   56 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL---------------------------   56 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE---------------------------
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeecccccccccc---------------------------
Confidence            45799999999999999999999643    23445566777776665532211                           


Q ss_pred             cCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchhhh
Q psy1174          92 LRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAVMD  167 (182)
Q Consensus        92 ~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~~~  167 (182)
                                ..+.++++|+|||.+|..++.+++..+|++++|+|+.+| +..|+++++..+    ++...++||+|..+
T Consensus        57 ----------~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g-~~~~~~~~~~~~~~~~~p~iiv~NKiD~~~  125 (179)
T d1wb1a4          57 ----------ENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEG-PKTQTGEHMLILDHFNIPIIVVITKSDNAG  125 (179)
T ss_dssp             ----------TTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTC-SCHHHHHHHHHHHHTTCCBCEEEECTTSSC
T ss_pred             ----------CCccccccccccccccccchhhhhhhccccccccccccc-cchhhhhhhhhhhhcCCcceeccccccccC
Confidence                      127899999999999999999999999999999999999 999998855432    33446799999775


Q ss_pred             HH
Q psy1174         168 AA  169 (182)
Q Consensus       168 ~~  169 (182)
                      .+
T Consensus       126 ~~  127 (179)
T d1wb1a4         126 TE  127 (179)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.52  E-value=2.9e-15  Score=113.46  Aligned_cols=109  Identities=19%  Similarity=0.218  Sum_probs=68.6

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|++|+|||||+++|++.....  .....+.|.......                                     
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~~~~~--~~~~~~tt~~~~~~~-------------------------------------   47 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGVKVAP--ISPRPQTTRKRLRGI-------------------------------------   47 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCCSC--CCSSSCCCCSCEEEE-------------------------------------
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee--ecccCCcccccccce-------------------------------------
Confidence            59999999999999999999743110  000111111111100                                     


Q ss_pred             cccccceEEEeeCCCh--------hHHHHHHHhccccCCeEEEEEEcCCCcccccccccchh------hHHHHhHhccch
Q psy1174          99 RFQLVRHVSFVDCPGH--------DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH------DILMATMLNGAA  164 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh--------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~------~il~~~~~nk~d  164 (182)
                      ......++.++||||+        ..+...+..++..||++|+|+|+.++ ...+.+.++..      ......++||+|
T Consensus        48 ~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~-~~~~~~~i~~~l~~~~~~~piilv~NK~D  126 (178)
T d1wf3a1          48 LTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHP-PTPEDELVARALKPLVGKVPILLVGNKLD  126 (178)
T ss_dssp             EEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSC-CCHHHHHHHHHHGGGTTTSCEEEEEECGG
T ss_pred             eeeeeeeeeecccccccccccccchhcccccccccccccceeeeechhhh-hcccccchhhheeccccchhhhhhhcccc
Confidence            0012268999999996        34555667788999999999999988 55544332211      112345689999


Q ss_pred             hhh
Q psy1174         165 VMD  167 (182)
Q Consensus       165 ~~~  167 (182)
                      +.+
T Consensus       127 l~~  129 (178)
T d1wf3a1         127 AAK  129 (178)
T ss_dssp             GCS
T ss_pred             ccc
Confidence            864

>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=99.43  E-value=3e-14  Score=107.86  Aligned_cols=111  Identities=15%  Similarity=0.069  Sum_probs=68.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+++|++|+|||||+++|++......  ....+.+.....                             ....    
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~~~~~--~~~~~t~~~~~~-----------------------------~~~~----   52 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKERALV--SPIPGTTRDPVD-----------------------------DEVF----   52 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEE--CCCC------CC-----------------------------EEEE----
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCccee--ecccccccccce-----------------------------eeec----
Confidence            57899999999999999999997431100  000000100000                             0011    


Q ss_pred             CCcccccceEEEeeCCChhH------------HHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDI------------LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATML  160 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~------------f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~  160 (182)
                          ..+..+.++|+||+..            +...+...+..+|++++|+|+..| ...+..+++...    ......+
T Consensus        53 ----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~~-~~~~~~~~~~~~~~~~~~~i~v~  127 (186)
T d1mkya2          53 ----IDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQG-ITRQDQRMAGLMERRGRASVVVF  127 (186)
T ss_dssp             ----ETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTC-CCHHHHHHHHHHHHTTCEEEEEE
T ss_pred             ----cCCceeeeeccCCccccccccccccccchhHHHHHHHhcCCEEEEeeccccc-chhhHHHHHHHHHHcCCceeeec
Confidence                1226789999999743            334567778899999999999998 777776644322    1223558


Q ss_pred             ccchhhh
Q psy1174         161 NGAAVMD  167 (182)
Q Consensus       161 nk~d~~~  167 (182)
                      ||+|+..
T Consensus       128 nK~D~~~  134 (186)
T d1mkya2         128 NKWDLVV  134 (186)
T ss_dssp             ECGGGST
T ss_pred             cchhhhc
Confidence            9999763

>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=99.40  E-value=4.3e-14  Score=106.49  Aligned_cols=104  Identities=19%  Similarity=0.196  Sum_probs=63.1

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|++|+|||||+|+|++....   .+...|.|.....                                       
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~---~~~~~g~T~~~~~---------------------------------------   39 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVR---RGKRPGVTRKIIE---------------------------------------   39 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCS---SSSSTTCTTSCEE---------------------------------------
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce---eeCCCCEeecccc---------------------------------------
Confidence            4899999999999999999974211   1112233322111                                       


Q ss_pred             cccccceEEEeeCCCh---------------hHHHHHHHhccccCCeEEEEEEcCC-----------Ccccccccccchh
Q psy1174          99 RFQLVRHVSFVDCPGH---------------DILMATMLNGAAVMDAALLLIGCDN-----------AAKTPEIVDCPGH  152 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh---------------~~f~~~~~~~~~~aD~ailVVda~~-----------g~~~~qt~e~l~~  152 (182)
                        .....+.++||||+               ..+......++..+|++++|||+..           + ...+..+++.+
T Consensus        40 --~~~~~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~-~~~~d~~~~~~  116 (184)
T d2cxxa1          40 --IEWKNHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRG-EIPIDVEFYQF  116 (184)
T ss_dssp             --EEETTEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTT-CCCHHHHHHHH
T ss_pred             --cccccceecccCCceeccccccccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhcc-ccHHHHHHHHH
Confidence              11145789999995               1233334556688999999999863           2 33333333322


Q ss_pred             h----HHHHhHhccchhhh
Q psy1174         153 D----ILMATMLNGAAVMD  167 (182)
Q Consensus       153 ~----il~~~~~nk~d~~~  167 (182)
                      .    +....++||+|...
T Consensus       117 l~~~~~p~iiv~NK~D~~~  135 (184)
T d2cxxa1         117 LRELDIPTIVAVNKLDKIK  135 (184)
T ss_dssp             HHHTTCCEEEEEECGGGCS
T ss_pred             HHHcCCCEEEEEeeeehhh
Confidence            1    22345689999763

>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=99.40  E-value=1.1e-13  Score=105.83  Aligned_cols=117  Identities=15%  Similarity=0.184  Sum_probs=71.6

Q ss_pred             ccccccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCC
Q psy1174           9 SNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDS   88 (182)
Q Consensus         9 ~~~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (182)
                      ++...+...++|+|+|++|+|||||+++|+|..... ......+.|......                            
T Consensus        15 ~~~~p~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~-~~~~~~~~t~~~~~~----------------------------   65 (195)
T d1svia_          15 PEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLA-RTSSKPGKTQTLNFY----------------------------   65 (195)
T ss_dssp             GGGSCCSCCCEEEEEEBTTSSHHHHHHHHHTC--------------CCEEEE----------------------------
T ss_pred             hhHCCCCCCCEEEEECCCCCCHHHHHHHhcCCCceE-Eeecccceeeecccc----------------------------
Confidence            344444555689999999999999999999742100 000001111111110                            


Q ss_pred             CcccCCCCCCcccccceEEEeeCCCh-------------hHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh--
Q psy1174          89 FPCLRSSCTGRFQLVRHVSFVDCPGH-------------DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD--  153 (182)
Q Consensus        89 ~~~~~~~~~~~~~~~~~i~lIDtPGh-------------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~--  153 (182)
                                  .....+.++|+||.             ..+......+...+|++++|||+..+ ++.++.+++++.  
T Consensus        66 ------------~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~viD~~~~-~~~~~~~~~~~l~~  132 (195)
T d1svia_          66 ------------IINDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHA-PSNDDVQMYEFLKY  132 (195)
T ss_dssp             ------------EETTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSC-CCHHHHHHHHHHHH
T ss_pred             ------------cccccceEEEEEeeccccccccccchhhhHHhhhhccccchhhhhhhhhcccc-cccccccccccccc
Confidence                        00144567777773             34555667777888999999999998 777777755443  


Q ss_pred             --HHHHhHhccchhhh
Q psy1174         154 --ILMATMLNGAAVMD  167 (182)
Q Consensus       154 --il~~~~~nk~d~~~  167 (182)
                        +....++||+|+..
T Consensus       133 ~~~piivv~NK~D~~~  148 (195)
T d1svia_         133 YGIPVIVIATKADKIP  148 (195)
T ss_dssp             TTCCEEEEEECGGGSC
T ss_pred             ccCcceechhhccccC
Confidence              22446699999753

>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=99.34  E-value=5.6e-13  Score=99.77  Aligned_cols=111  Identities=17%  Similarity=0.068  Sum_probs=66.4

Q ss_pred             ceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTG   98 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (182)
                      .|+++|++|+|||||+++|+|....  ..+...+.|.......+                                    
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~--~~~~~~~~t~~~~~~~~------------------------------------   43 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKA--IVEDEEGVTRDPVQDTV------------------------------------   43 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC----------------CCSEEEE------------------------------------
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcc--eecccCceeeccccccc------------------------------------
Confidence            4899999999999999999974211  01111222222211100                                    


Q ss_pred             cccccceEEEeeCCCh---------hHHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh----HHHHhHhccchh
Q psy1174          99 RFQLVRHVSFVDCPGH---------DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD----ILMATMLNGAAV  165 (182)
Q Consensus        99 ~~~~~~~i~lIDtPGh---------~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~----il~~~~~nk~d~  165 (182)
                       ......+.+.|+||.         ..+.......+..+|++++++|+.++ ...+.++++...    ......+||+|+
T Consensus        44 -~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~~-~~~~~~~~~~~l~~~~~pviiv~NK~Dl  121 (171)
T d1mkya1          44 -EWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRG-ITKEDESLADFLRKSTVDTILVANKAEN  121 (171)
T ss_dssp             -EETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTC-CCHHHHHHHHHHHHHTCCEEEEEESCCS
T ss_pred             -cccccccccccccceeeeeccccccccccccccccccCcEEEEeeccccc-ccccccccccccccccccccccchhhhh
Confidence             011267889999994         23444556667899999999999988 666655533321    123455899998


Q ss_pred             hhHH
Q psy1174         166 MDAA  169 (182)
Q Consensus       166 ~~~~  169 (182)
                      .++.
T Consensus       122 ~~~~  125 (171)
T d1mkya1         122 LREF  125 (171)
T ss_dssp             HHHH
T ss_pred             hhhh
Confidence            7643

>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=99.24  E-value=1.2e-12  Score=100.17  Aligned_cols=80  Identities=14%  Similarity=0.137  Sum_probs=54.6

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+++|++|+|||||+++|++....       .+.|.......                                   
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~-------~~tt~~~~~~~-----------------------------------   40 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVR-------PTVVSQEPLSA-----------------------------------   40 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCC-------CBCCCSSCEEE-----------------------------------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-------CeEEecceEEE-----------------------------------
Confidence            357999999999999999999864321       11111111100                                   


Q ss_pred             CCcccccceEEEeeCCChhH----HHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDI----LMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~----f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        ....+..+.++||||+..    +...+..++..+|.+++++|+...
T Consensus        41 --~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~   86 (209)
T d1nrjb_          41 --ADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVD   86 (209)
T ss_dssp             --TTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSC
T ss_pred             --EEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEecc
Confidence              011236789999999975    455556667888999999999875

>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=99.23  E-value=2e-13  Score=100.63  Aligned_cols=63  Identities=14%  Similarity=0.100  Sum_probs=40.0

Q ss_pred             ceEEEeeCCChh--------H-HHHHHHhccccCCeEEEEEEcCCCcccccccccchhh--HHHHhHhccchhhh
Q psy1174         104 RHVSFVDCPGHD--------I-LMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD--ILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDtPGh~--------~-f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~--il~~~~~nk~d~~~  167 (182)
                      ..+.++||||..        . ......+++..+|++++|+|+.++ ...+..+.....  ......+||+|..+
T Consensus        48 ~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~~-~~~~~~~~~~~~~~~~~i~~~~k~d~~~  121 (160)
T d1xzpa2          48 ILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSP-LDEEDRKILERIKNKRYLVVINKVDVVE  121 (160)
T ss_dssp             EEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSC-CCHHHHHHHHHHTTSSEEEEEEECSSCC
T ss_pred             eeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCC-cchhhhhhhhhcccccceeeeeeccccc
Confidence            778999999952        1 223456677889999999999988 444433311110  11124478888664

>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=99.23  E-value=1e-12  Score=99.09  Aligned_cols=112  Identities=14%  Similarity=0.118  Sum_probs=64.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++|+|||||+++|++.....   ....+.+....+.   ..                         ..     
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~~~~~~---~~~~~~t~~~~~~---~~-------------------------~~-----   45 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTRAHPKI---APYPFTTLSPNLG---VV-------------------------EV-----   45 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEE---CCCTTCSSCCEEE---EE-------------------------EC-----
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCce---eccCCCceeeeec---ee-------------------------ee-----
Confidence            469999999999999999998643110   0001111111000   00                         00     


Q ss_pred             CcccccceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCCCcccccccccchhh---------HHHHhHhc
Q psy1174          98 GRFQLVRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHD---------ILMATMLN  161 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~~---------il~~~~~n  161 (182)
                         ....++.++||||+.       .+...+...+..+|++++++|+... ............         .....++|
T Consensus        46 ---~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~-~~~~~~~~~~~~~~~~~~~~~~p~iiv~N  121 (180)
T d1udxa2          46 ---SEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADE-PLKTLETLRKEVGAYDPALLRRPSLVALN  121 (180)
T ss_dssp             ---SSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSC-HHHHHHHHHHHHHHHCHHHHHSCEEEEEE
T ss_pred             ---cCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccc-cccchhhhhhhhhccccccchhhhhhhhh
Confidence               112679999999942       3444677788999999999999765 322211111010         11224689


Q ss_pred             cchhhhHH
Q psy1174         162 GAAVMDAA  169 (182)
Q Consensus       162 k~d~~~~~  169 (182)
                      |+|+.+..
T Consensus       122 K~D~~~~~  129 (180)
T d1udxa2         122 KVDLLEEE  129 (180)
T ss_dssp             CCTTSCHH
T ss_pred             hhhhhhHH
Confidence            99987543

>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=99.22  E-value=9.3e-12  Score=91.54  Aligned_cols=110  Identities=13%  Similarity=0.095  Sum_probs=63.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|++|+|||||+++|++.....  .....+.+.......                             .      
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~--~~~~~~~~~~~~~~~-----------------------------~------   44 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAI--VTDIAGTTRDVLREH-----------------------------I------   44 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSC--CCSSTTCCCSCEEEE-----------------------------E------
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceE--eecccccccceEeee-----------------------------e------
Confidence            469999999999999999999743210  000111111110000                             0      


Q ss_pred             CcccccceEEEeeCCChh--------HHHHHHHhccccCCeEEEEEEcCCCcccccccccchh-------hHHHHhHhcc
Q psy1174          98 GRFQLVRHVSFVDCPGHD--------ILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGH-------DILMATMLNG  162 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~--------~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~~-------~il~~~~~nk  162 (182)
                        ......+.++|+||..        ........+...+|++++++|+... ......+.+..       .......+||
T Consensus        45 --~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~-~~~~~~~~~~~~~~~~~~~~~iilv~NK  121 (161)
T d2gj8a1          45 --HIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTT-DAVDPAEIWPEFIARLPAKLPITVVRNK  121 (161)
T ss_dssp             --EETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTC-CCCSHHHHCHHHHHHSCTTCCEEEEEEC
T ss_pred             --eccCceeeeccccccccccccchhHHHHHHHHHHHhccccceeeccccc-cchhhhhhhhhhhhhcccccceeeccch
Confidence              0112779999999952        2233345556889999999999976 22222221111       1112356999


Q ss_pred             chhhh
Q psy1174         163 AAVMD  167 (182)
Q Consensus       163 ~d~~~  167 (182)
                      +|+.+
T Consensus       122 ~Dl~~  126 (161)
T d2gj8a1         122 ADITG  126 (161)
T ss_dssp             HHHHC
T ss_pred             hhhhh
Confidence            99765

>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=99.18  E-value=1.5e-11  Score=91.88  Aligned_cols=109  Identities=14%  Similarity=0.096  Sum_probs=69.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      ...+|+++|.+|+|||||+++|.+.....        .+...++   .....                            
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~~~~~~--------~~~~~~~---~~~~i----------------------------   55 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLASEDISH--------ITPTQGF---NIKSV----------------------------   55 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCSCCEE--------EEEETTE---EEEEE----------------------------
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhcCCCCc--------ceeeeee---eEEEe----------------------------
Confidence            45689999999999999999998632210        0111111   00000                            


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCccccccc----ccch----hhHHHHhHhccchhhh
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIV----DCPG----HDILMATMLNGAAVMD  167 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~----e~l~----~~il~~~~~nk~d~~~  167 (182)
                          ......+.+.|+||+..|..........+|++++|+|+.+..-.....    +...    ..++...+.||+|+.+
T Consensus        56 ----~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~  131 (176)
T d1fzqa_          56 ----QSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLT  131 (176)
T ss_dssp             ----EETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTT
T ss_pred             ----ccCCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccc
Confidence                011267899999999999988888899999999999998752111111    1111    1233445689999764

>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=99.15  E-value=7.5e-12  Score=92.71  Aligned_cols=107  Identities=12%  Similarity=0.076  Sum_probs=67.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|.+|+|||||+++|.+.....      .+.|......  .+                                 
T Consensus         3 ~ki~ivG~~~~GKTsLi~~l~~~~~~~------~~~t~~~~~~--~~---------------------------------   41 (165)
T d1ksha_           3 LRLLMLGLDNAGKTTILKKFNGEDVDT------ISPTLGFNIK--TL---------------------------------   41 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCCCSS------CCCCSSEEEE--EE---------------------------------
T ss_pred             EEEEEECCCCCCHHHHHHHHcCCCCCc------ccceEeeeee--ec---------------------------------
Confidence            579999999999999999998643211      1111111110  00                                 


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccc----cch----hhHHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD----CPG----HDILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e----~l~----~~il~~~~~nk~d~~~  167 (182)
                        ......+.+.||||+..|.......+..+|++++|+|+.+-.......+    .+.    ..++...+.||+|+.+
T Consensus        42 --~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~  117 (165)
T d1ksha_          42 --EHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG  117 (165)
T ss_dssp             --EETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             --cccccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEecccccc
Confidence              0112679999999999998877788899999999999886411111111    111    1133445689999753

>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=99.15  E-value=7.3e-12  Score=93.03  Aligned_cols=81  Identities=14%  Similarity=0.081  Sum_probs=57.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|+.|+|||||+++|.+.....   +  ...|+...+..+                                   
T Consensus         3 ~ki~i~G~~~~GKTsLl~~l~~~~~~~---~--~~~T~~~~~~~~-----------------------------------   42 (164)
T d1zd9a1           3 MELTLVGLQYSGKTTFVNVIASGQFNE---D--MIPTVGFNMRKI-----------------------------------   42 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCC---S--CCCCCSEEEEEE-----------------------------------
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCC---c--ccccceeeeeee-----------------------------------
Confidence            578999999999999999998432110   0  001111111000                                   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        ......+.+.|+||+..|.......+..+|++++|+|+.+.
T Consensus        43 --~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   83 (164)
T d1zd9a1          43 --TKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQ   83 (164)
T ss_dssp             --EETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCG
T ss_pred             --eeeeEEEEEeeccccccccccccccccccchhhcccccccc
Confidence              01126799999999999998888888999999999999864

>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=99.14  E-value=8.4e-12  Score=94.21  Aligned_cols=83  Identities=18%  Similarity=0.130  Sum_probs=50.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      -+|+++|++|+|||||+|+|++....   .....+.|........                                   
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~~~~---~~~~~~~T~~~~~~~~-----------------------------------   43 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSAKPK---IADYHFTTLVPNLGMV-----------------------------------   43 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCE---ESSTTSSCCCCCEEEE-----------------------------------
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCc---eecCCCceEeeeecee-----------------------------------
Confidence            36999999999999999999863210   0001111211111000                                   


Q ss_pred             CcccccceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~  139 (182)
                       .....+.+.++||||+.+       ........+..+|.++.+++...
T Consensus        44 -~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~   91 (185)
T d1lnza2          44 -ETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSG   91 (185)
T ss_dssp             -ECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSC
T ss_pred             -EecCCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheeeecc
Confidence             001126799999999732       22345566777898888887764

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=2.9e-11  Score=90.26  Aligned_cols=85  Identities=13%  Similarity=0.077  Sum_probs=57.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|..|+|||||+++|.+..-   ..+.....+.......+.+                             .   
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f---~~~~~~~~~~~~~~~~~~~-----------------------------~---   50 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLF---PPGQGATIGVDFMIKTVEI-----------------------------N---   50 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSC---CTTCCCCCSEEEEEEEEEE-----------------------------T---
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCC---CCcccccccceEEEEEEEE-----------------------------C---
Confidence            5699999999999999999984221   1111112222221111111                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         ....++.+.||||++.|.......+..+|++++|+|..+.
T Consensus        51 ---~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~   90 (171)
T d2ew1a1          51 ---GEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCE   90 (171)
T ss_dssp             ---TEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCH
T ss_pred             ---CEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccc
Confidence               0125688899999999998888888999999999999875

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=1.4e-11  Score=92.27  Aligned_cols=37  Identities=14%  Similarity=0.104  Sum_probs=33.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+.+|........+.+|++++|+|....
T Consensus        54 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   90 (174)
T d2bmea1          54 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSR   90 (174)
T ss_dssp             EEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCH
T ss_pred             eeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccc
Confidence            5788999999999999888889999999999999875

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.10  E-value=1.1e-10  Score=86.99  Aligned_cols=85  Identities=11%  Similarity=0.008  Sum_probs=57.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|..|+|||||+++|++..-.   .+.....+.......+..                                 
T Consensus         6 ~Ki~vvG~~~vGKTsLi~~l~~~~~~---~~~~~~~~~~~~~~~~~~---------------------------------   49 (169)
T d3raba_           6 FKILIIGNSSVGKTSFLFRYADDSFT---PAFVSTVGIDFKVKTIYR---------------------------------   49 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCC---SSCCCCCSEEEEEEEEEE---------------------------------
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCC---cccccccccceeeEEEEe---------------------------------
Confidence            56999999999999999999843210   000111111111100000                                 


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        ......+.+.||||+++|.......++.+|++|+|+|+.+.
T Consensus        50 --~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~   90 (169)
T d3raba_          50 --NDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNE   90 (169)
T ss_dssp             --TTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCH
T ss_pred             --ecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccc
Confidence              01125789999999999998888889999999999999975

>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=99.09  E-value=1.9e-11  Score=91.45  Aligned_cols=110  Identities=15%  Similarity=0.115  Sum_probs=69.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|.+|+|||||+++|.......      ...|.....     +..                           
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~------~~~t~~~~~-----~~~---------------------------   51 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVT------TIPTVGFNV-----ETV---------------------------   51 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEE------EEEETTEEE-----EEE---------------------------
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCC------ccceeeeeE-----EEe---------------------------
Confidence            445779999999999999999998432110      001110100     000                           


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccc----h----hhHHHHhHhccchhh
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCP----G----HDILMATMLNGAAVM  166 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l----~----~~il~~~~~nk~d~~  166 (182)
                           ......+.+.|+||...+.......+..+|++++|+|+.+-.-.....+.+    .    ...+...+.||+|+.
T Consensus        52 -----~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~  126 (173)
T d1e0sa_          52 -----TYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP  126 (173)
T ss_dssp             -----EETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTST
T ss_pred             -----eccceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccc
Confidence                 011267899999999999998888999999999999998642111111111    1    123344668999975


Q ss_pred             h
Q psy1174         167 D  167 (182)
Q Consensus       167 ~  167 (182)
                      +
T Consensus       127 ~  127 (173)
T d1e0sa_         127 D  127 (173)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.07  E-value=2.5e-11  Score=94.36  Aligned_cols=65  Identities=12%  Similarity=0.068  Sum_probs=46.0

Q ss_pred             cceEEEeeCCChhHHHHHHHhcccc-----CCeEEEEEEcCCCcccccccccchhhH---------HHHhHhccchhhhH
Q psy1174         103 VRHVSFVDCPGHDILMATMLNGAAV-----MDAALLLIGCDNAAKTPEIVDCPGHDI---------LMATMLNGAAVMDA  168 (182)
Q Consensus       103 ~~~i~lIDtPGh~~f~~~~~~~~~~-----aD~ailVVda~~g~~~~qt~e~l~~~i---------l~~~~~nk~d~~~~  168 (182)
                      ...+.++|+|||..+...+..+...     .+.+++++|+..+ .++++........         .....+||+|+.+.
T Consensus        94 ~~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~-~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          94 ENDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEIL-KKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSE  172 (244)
T ss_dssp             HCSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGC-CSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             ccceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccc-cCchhHhhHHHHHHHHHHHhCCCceeeeeccccccH
Confidence            3569999999999988776666543     4579999999988 7877765221110         11356999998763

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.07  E-value=4e-11  Score=89.76  Aligned_cols=85  Identities=14%  Similarity=0.073  Sum_probs=38.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|++++|||||+++|++...   ..+....+........+.+                             .   
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~~---~~~~~~t~~~~~~~~~~~~-----------------------------~---   51 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSEDAF---NSTFISTIGIDFKIRTIEL-----------------------------D---   51 (173)
T ss_dssp             EEEEEECCCCC-------------------CHHHHHCEEEEEEEEEE-----------------------------T---
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCC---CCccCccccceEEEEEEEE-----------------------------C---
Confidence            4699999999999999999985321   1111222222222211111                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....+.+.||||++.|.......++.+|++|+|+|+.+.
T Consensus        52 ---~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~   91 (173)
T d2fu5c1          52 ---GKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNE   91 (173)
T ss_dssp             ---TEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCH
T ss_pred             ---CEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCCh
Confidence               0115788899999999998777788999999999999875

>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=99.05  E-value=7.9e-12  Score=94.23  Aligned_cols=87  Identities=13%  Similarity=0.037  Sum_probs=56.2

Q ss_pred             ccccCCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCc
Q psy1174          11 WVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFP   90 (182)
Q Consensus        11 ~~~~~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (182)
                      ++.+++..+|+++|.+|+|||||+++|.+.....      ...|...     ..+.                        
T Consensus        11 l~~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~------~~~t~~~-----~~~~------------------------   55 (182)
T d1moza_          11 LWGSNKELRILILGLDGAGKTTILYRLQIGEVVT------TKPTIGF-----NVET------------------------   55 (182)
T ss_dssp             GTTCSSCEEEEEEEETTSSHHHHHHHTCCSEEEE------ECSSTTC-----CEEE------------------------
T ss_pred             HhCCCceEEEEEECCCCCCHHHHHHHHhcCCCCc------cccccce-----EEEE------------------------
Confidence            4456677899999999999999999997532100      0000000     0000                        


Q ss_pred             ccCCCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          91 CLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        91 ~~~~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                              .......+.+.|+||+..|..........+|++++|+|+.+.
T Consensus        56 --------~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~   97 (182)
T d1moza_          56 --------LSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDK   97 (182)
T ss_dssp             --------EEETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCT
T ss_pred             --------EeeCCEEEEEEecccccccchhHHhhhccceeEEEEeeeccc
Confidence                    001126789999999999887777777899999999999875

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=8.7e-12  Score=93.67  Aligned_cols=112  Identities=13%  Similarity=0.055  Sum_probs=67.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|.+|+|||||+++|++....   .+.....+.......+..                                 
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~~~~---~~~~~~~~~~~~~~~~~~---------------------------------   48 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRNEFN---LESKSTIGVEFATRSIQV---------------------------------   48 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCC---C---CCCSCEEEEEEEEE---------------------------------
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC---CcccccccceeeeEEEEE---------------------------------
Confidence            46999999999999999999853211   111111111111110000                                 


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCcccccccccch-------hhHHHHhHhccchhhh
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPG-------HDILMATMLNGAAVMD  167 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e~l~-------~~il~~~~~nk~d~~~  167 (182)
                        ......+.+.|+||+++|..........+|++|+|+|..+..-.....+.+.       ..++.....||+|+.+
T Consensus        49 --~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~  123 (175)
T d2f9la1          49 --DGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRH  123 (175)
T ss_dssp             --TTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGG
T ss_pred             --CCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccc
Confidence              0112578899999999988777777899999999999987521111111111       1123334569999764

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.01  E-value=7e-11  Score=88.11  Aligned_cols=37  Identities=16%  Similarity=0.152  Sum_probs=24.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||++++..........+|++++|+|+.+.
T Consensus        52 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   88 (175)
T d1ky3a_          52 ATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNA   88 (175)
T ss_dssp             EEEEEECCC----------CCSTTCCEEEEEEETTCH
T ss_pred             ccceeeccCCchhhhhHHHHHhhccceEEEEeecccc
Confidence            5678899999999998888889999999999999875

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.99  E-value=9.4e-11  Score=88.00  Aligned_cols=87  Identities=13%  Similarity=0.085  Sum_probs=57.7

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +.++|+++|..|+|||||+++|.+....   .+.....+.......+.+                               
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~-------------------------------   51 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFD---PELAATIGVDFKVKTISV-------------------------------   51 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCC---TTCCCCCSEEEEEEEEEE-------------------------------
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCC---CccccceeecceeEEEEE-------------------------------
Confidence            3467999999999999999999853211   111111111111111000                               


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ......+.+.||||+.++..........+|++++|+|..+.
T Consensus        52 ----~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~   92 (177)
T d1x3sa1          52 ----DGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRR   92 (177)
T ss_dssp             ----TTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCH
T ss_pred             ----eccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCc
Confidence                01126789999999999887667778999999999998864

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.98  E-value=8.2e-11  Score=87.25  Aligned_cols=85  Identities=13%  Similarity=0.061  Sum_probs=55.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|.+++|||||+++|++..-.   .+.....+.......+.+                             .   
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~---~~~~~t~~~~~~~~~i~~-----------------------------~---   47 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFN---PSFITTIGIDFKIKTVDI-----------------------------N---   47 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCC---C-------CCEEEEEEES-----------------------------S---
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC---CccCCccceeEEEEEEEE-----------------------------C---
Confidence            57999999999999999999843211   111111111111111000                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         ....++.+.||||++.|.......++.+|++++|+|..+.
T Consensus        48 ---~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   87 (166)
T d1g16a_          48 ---GKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDE   87 (166)
T ss_dssp             ---SCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCH
T ss_pred             ---CEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCc
Confidence               0125688899999988876666677899999999999986

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.98  E-value=1.7e-10  Score=85.40  Aligned_cols=37  Identities=14%  Similarity=0.107  Sum_probs=32.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+.++.......+..+|++++|+|..+.
T Consensus        51 ~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   87 (164)
T d1z2aa1          51 VRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDR   87 (164)
T ss_dssp             EEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCH
T ss_pred             eeeeeeccCCccchhhhhhhhhccCceEEEEEeccch
Confidence            6788999999998877666677899999999999875

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=1.3e-10  Score=88.73  Aligned_cols=37  Identities=5%  Similarity=0.070  Sum_probs=32.4

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.++||||+++|...+...++.+|++|+|+|+...
T Consensus        55 ~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~   91 (194)
T d2bcgy1          55 VKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQ   91 (194)
T ss_dssp             EEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCH
T ss_pred             EEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcch
Confidence            6789999999999887666777999999999999875

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=2.2e-10  Score=86.35  Aligned_cols=37  Identities=14%  Similarity=0.097  Sum_probs=33.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+++|.......+..+|++|+|+|..+.
T Consensus        64 ~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~  100 (186)
T d2f7sa1          64 VHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQ  100 (186)
T ss_dssp             EEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCH
T ss_pred             EEeccccCCcchhhHHHHHHHHhcCCEEEEEEecccc
Confidence            6789999999999998777778999999999999874

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=1.2e-09  Score=81.25  Aligned_cols=82  Identities=15%  Similarity=0.016  Sum_probs=48.4

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccc-cceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYA-NAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      ..|+++|..|+|||||+++|.+.......      .+....+. .+.+                             .  
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~~------~~~~~~~~~~i~~-----------------------------~--   44 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPEA------EAAGHTYDRSIVV-----------------------------D--   44 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC---------------CEEEEEEEEE-----------------------------T--
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCcC------Ceeeeeecceeec-----------------------------c--
Confidence            46899999999999999999864321100      01111010 0000                             0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....+.+.||||++.|.......+..+|++|+|+|..+.
T Consensus        45 ----~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~   84 (168)
T d2gjsa1          45 ----GEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDK   84 (168)
T ss_dssp             ----TEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCH
T ss_pred             ----ccccceeeeecccccccceecccchhhhhhhceecccccc
Confidence                1126788999999999987777778999999999999875

>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=98.92  E-value=6.4e-10  Score=89.02  Aligned_cols=27  Identities=30%  Similarity=0.231  Sum_probs=23.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +..++|+++|.+|+|||||+|+|+|..
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            456899999999999999999999853

>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=98.91  E-value=1.2e-09  Score=83.58  Aligned_cols=83  Identities=18%  Similarity=0.198  Sum_probs=54.0

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|++|+|||||+++|++......    ...++.....     +...                             
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~~~~----~~t~~~~~~~-----~~~~-----------------------------   42 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQYRDT----QTSITDSSAI-----YKVN-----------------------------   42 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCCB----CCCCSCEEEE-----EECS-----------------------------
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcc----cCCeeEEEEE-----EEEe-----------------------------
Confidence            4799999999999999999985332100    0111111110     0000                             


Q ss_pred             CcccccceEEEeeCCChhHHHHHHH-hccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATML-NGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~-~~~~~aD~ailVVda~~g  140 (182)
                        ......+.+.|+||+..+..... .....+|++++|+|+.+.
T Consensus        43 --~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~   84 (207)
T d2fh5b1          43 --NNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAF   84 (207)
T ss_dssp             --STTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTH
T ss_pred             --eeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcccc
Confidence              01126789999999999876544 445889999999999864

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.91  E-value=1.5e-09  Score=80.22  Aligned_cols=85  Identities=15%  Similarity=0.152  Sum_probs=57.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|..++|||||+++|++....   .+.....+.........+                             .   
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~---~~~~~~~~~~~~~~~~~~-----------------------------~---   49 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFM---ADCPHTIGVEFGTRIIEV-----------------------------S---   49 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCC---SSCTTSCCCCEEEEEEEE-----------------------------T---
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC---CcccccccccceeEEEEE-----------------------------C---
Confidence            56999999999999999999853211   111111111111100000                             0   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....+.+.||||+++|........+.+|++++|+|..+.
T Consensus        50 ---~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~   89 (166)
T d1z0fa1          50 ---GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRR   89 (166)
T ss_dssp             ---TEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCH
T ss_pred             ---CEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCch
Confidence               1125788999999999988888888999999999999875

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=5.5e-10  Score=82.35  Aligned_cols=37  Identities=14%  Similarity=0.144  Sum_probs=33.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|+||+..|..........+|++++|+|..+.
T Consensus        49 ~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   85 (164)
T d1yzqa1          49 IRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNV   85 (164)
T ss_dssp             EEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCH
T ss_pred             eeeeecccCCcchhccchHHHhhccceEEEeeccccc
Confidence            6789999999999988878888999999999999876

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=1e-09  Score=81.53  Aligned_cols=37  Identities=19%  Similarity=0.153  Sum_probs=26.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++++.||||+++|..........+|++++|+|....
T Consensus        56 ~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~   92 (170)
T d2g6ba1          56 VKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNK   92 (170)
T ss_dssp             EEEEEEECCCC--------CCGGGCSEEEEEEETTCH
T ss_pred             EEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcc
Confidence            5789999999999988777788999999999999875

>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=98.87  E-value=2.6e-10  Score=96.98  Aligned_cols=26  Identities=19%  Similarity=0.367  Sum_probs=23.4

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .+++|+|+|.+|+|||||+|+|+|..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~   80 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIG   80 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999999999743

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.87  E-value=5.7e-10  Score=82.71  Aligned_cols=37  Identities=14%  Similarity=0.028  Sum_probs=31.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||+|+..+..........+|++|+|+|....
T Consensus        53 ~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   89 (167)
T d1z0ja1          53 HKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKE   89 (167)
T ss_dssp             EEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCH
T ss_pred             cceeeeecCCchhhhHHHHHHHhhccceEEEeeechh
Confidence            5678899999998887777778999999999999864

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.86  E-value=3.3e-10  Score=84.30  Aligned_cols=37  Identities=14%  Similarity=0.062  Sum_probs=32.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|+||++.|.......+..+|++++|+|..+.
T Consensus        55 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   91 (170)
T d1r2qa_          55 VKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNE   91 (170)
T ss_dssp             EEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCH
T ss_pred             EEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchh
Confidence            5688899999999987777778999999999998875

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.84  E-value=1e-09  Score=81.89  Aligned_cols=37  Identities=8%  Similarity=0.060  Sum_probs=32.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||...|........+.+|++++|.|+.+.
T Consensus        52 ~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   88 (170)
T d1i2ma_          52 IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSR   88 (170)
T ss_dssp             EEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSG
T ss_pred             ccccccccccccccceecchhcccccchhhccccccc
Confidence            6789999999999887666777899999999999875

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=1.8e-09  Score=79.92  Aligned_cols=37  Identities=14%  Similarity=0.087  Sum_probs=27.2

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|++|...+..........+|++|+|.|..+.
T Consensus        52 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   88 (167)
T d1z08a1          52 VNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDE   88 (167)
T ss_dssp             EEEEEEECCCC-------CCSSTTCSEEEEEEETTCH
T ss_pred             ceeeeeccCCcceecccchhhccCCceeEEEEeCCch
Confidence            6788999999999988777788999999999999875

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=98.83  E-value=4.4e-09  Score=75.94  Aligned_cols=37  Identities=8%  Similarity=0.117  Sum_probs=33.4

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|+||...+..........+|++++++|..+-
T Consensus        44 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~   80 (160)
T d1r8sa_          44 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR   80 (160)
T ss_dssp             CEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCG
T ss_pred             EEEEEecCCCcccchhhhhhhhccceeEEEEEEecCh
Confidence            6789999999999988888889999999999999864

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.82  E-value=3.4e-10  Score=85.25  Aligned_cols=37  Identities=11%  Similarity=0.108  Sum_probs=32.7

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+..+.......+..+|++++++|..+.
T Consensus        51 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~   87 (184)
T d1vg8a_          51 VTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAP   87 (184)
T ss_dssp             EEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCH
T ss_pred             EEEEeeecCCcccccccccccccCccEEEEeecccch
Confidence            5788999999998888778888999999999999864

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=2.5e-09  Score=80.72  Aligned_cols=87  Identities=14%  Similarity=0.050  Sum_probs=57.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +..++|+++|..++|||||+++|+...-.   .+  .-.|+.... ...+                           ...
T Consensus         7 ~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~---~~--~~~Ti~~~~-~~~~---------------------------~~~   53 (185)
T d2atxa1           7 ALMLKCVVVGDGAVGKTCLLMSYANDAFP---EE--YVPTVFDHY-AVSV---------------------------TVG   53 (185)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSSCC---CS--CCCSSCCCE-EEEE---------------------------ESS
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHhhCCCC---Cc--CCCceeeee-eEEE---------------------------eeC
Confidence            45678999999999999999999842110   00  000110000 0000                           000


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.+.||||++.|..........+|++++|+|+++.
T Consensus        54 ------~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~   93 (185)
T d2atxa1          54 ------GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNP   93 (185)
T ss_dssp             ------SCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCH
T ss_pred             ------CceEEeecccccccchhhhhhhhcccccceeeeccccchH
Confidence                  1126788999999999887777788999999999999874

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.76  E-value=4.1e-09  Score=78.65  Aligned_cols=37  Identities=14%  Similarity=0.069  Sum_probs=33.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|+||+..|..........+|++|||+|..+.
T Consensus        50 ~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   86 (177)
T d1kmqa_          50 VELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSP   86 (177)
T ss_dssp             EEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCH
T ss_pred             eeeeccccCccchhcccchhhcccchhhhhhcccchh
Confidence            6789999999999998777788999999999999875

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=3.5e-09  Score=80.15  Aligned_cols=112  Identities=13%  Similarity=0.024  Sum_probs=67.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .+.|+++|..|+|||||+++|+.....   .+  ...|+...+.....                            ..  
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~---~~--~~~t~~~~~~~~~~----------------------------~~--   47 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFP---SE--YVPTVFDNYAVTVM----------------------------IG--   47 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCC---SS--CCCCSEEEEEEEEE----------------------------ET--
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCC---CC--cCCceeeecceeEe----------------------------eC--
Confidence            568999999999999999999843211   00  00111111100000                            00  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCCc----ccccccccchh---hHHHHhHhccchhhh
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDCPGH---DILMATMLNGAAVMD  167 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~l~~---~il~~~~~nk~d~~~  167 (182)
                          .....+.+.||||+.+|..........+|++++|+|..+..    +..+..+.+.+   .+....+.||+|+.+
T Consensus        48 ----~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~  121 (191)
T d2ngra_          48 ----GEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRD  121 (191)
T ss_dssp             ----TEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGG
T ss_pred             ----CceeeeeccccccchhhhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccc
Confidence                11257899999999999887777789999999999998651    11111111111   122335689999764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.73  E-value=8.3e-09  Score=75.75  Aligned_cols=37  Identities=14%  Similarity=0.196  Sum_probs=29.8

Q ss_pred             ceEEEeeCCChhHHHHHH-HhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATM-LNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~-~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|++|...+.... -..+..+|++|+|+|..+.
T Consensus        51 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~   88 (165)
T d1z06a1          51 IKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNM   88 (165)
T ss_dssp             EEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCH
T ss_pred             eEEEEEeccCchhhccccceeeecCCCceEEEEEeehh
Confidence            678899999988776543 3456899999999999975

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.72  E-value=1.1e-08  Score=75.55  Aligned_cols=37  Identities=14%  Similarity=0.078  Sum_probs=33.0

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||+|...|..........+|++++|+|+.+.
T Consensus        50 ~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~   86 (171)
T d2erxa1          50 CTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSR   86 (171)
T ss_dssp             EEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             ceeccccccccccccccccccccceeEEEEEeecccc
Confidence            5678899999999988888888999999999999874

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.72  E-value=1.4e-08  Score=74.87  Aligned_cols=37  Identities=11%  Similarity=0.029  Sum_probs=33.0

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|++|...+..........+|++++|.|..+.
T Consensus        51 ~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~   87 (167)
T d1kaoa_          51 SVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQ   87 (167)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             EeeccccCCCccccccchHHHhhcccceeeeeeecch
Confidence            5688899999999888888888999999999999864

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.71  E-value=1.1e-08  Score=75.72  Aligned_cols=86  Identities=17%  Similarity=0.152  Sum_probs=57.1

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+++|..++|||||+.++++..-.   .+...  |....+....+ ..                             
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~---~~~~~--t~~~~~~~~~i-~~-----------------------------   47 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFA---ENKEP--TIGAAFLTQRV-TI-----------------------------   47 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCC---TTCCC--CSSEEEEEEEE-EE-----------------------------
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCC---ccccc--cccceeecccc-cc-----------------------------
Confidence            367999999999999999999843211   11011  11111100000 00                             


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         ......+.+.||+|+..+.......+..+|++++|+|..+.
T Consensus        48 ---~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   88 (170)
T d1ek0a_          48 ---NEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKP   88 (170)
T ss_dssp             ---TTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCH
T ss_pred             ---ccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcc
Confidence               01126799999999999887777788999999999999875

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.70  E-value=7e-09  Score=77.25  Aligned_cols=37  Identities=14%  Similarity=0.162  Sum_probs=32.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||||+.+|..........+|++|+|+|..+.
T Consensus        54 ~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   90 (173)
T d2fn4a1          54 ARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDR   90 (173)
T ss_dssp             EEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCH
T ss_pred             eeeeccccccccccccccchhhccceeeeeecccccc
Confidence            5788899999999887777778899999999999875

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.70  E-value=1e-08  Score=76.18  Aligned_cols=87  Identities=15%  Similarity=0.088  Sum_probs=57.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .|...|+++|..++|||||++++++..-.   .+...  |....+.. .+ ..                           
T Consensus         2 ~pt~Ki~lvG~~~vGKTsll~~~~~~~~~---~~~~~--t~~~~~~~-~~-~~---------------------------   47 (169)
T d1x1ra1           2 LPTYKLVVVGDGGVGKSALTIQFFQKIFV---PDYDP--TIEDSYLK-HT-EI---------------------------   47 (169)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHHSSCC---TTCCT--TCCEEEEE-EE-EE---------------------------
T ss_pred             CCcEEEEEECCCCcCHHHHHHHHHhCCCC---cccCc--ceeecccc-cc-cc---------------------------
Confidence            46678999999999999999999853211   01001  11000100 00 00                           


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                           ......+.+.|++|+..+........+.+|++++|+|..+.
T Consensus        48 -----~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~   88 (169)
T d1x1ra1          48 -----DNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK   88 (169)
T ss_dssp             -----TTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCH
T ss_pred             -----ccccccccccccccccccccchhhhhhhccEEEEecccccc
Confidence                 01126788999999999877666677899999999999975

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.69  E-value=5e-09  Score=77.33  Aligned_cols=85  Identities=18%  Similarity=0.163  Sum_probs=55.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .++|+++|..|+|||||+++|++..-.   .+  ...|+...+.. . +..                          .  
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~~f~---~~--~~~t~~~~~~~-~-~~~--------------------------~--   48 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEGQFV---DS--YDPTIENTFTK-L-ITV--------------------------N--   48 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCC---SC--CCSSCCEEEEE-E-EEE--------------------------T--
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCC---cc--cCcceecccce-E-Eec--------------------------C--
Confidence            467999999999999999999842211   00  00111111110 0 000                          0  


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....+.+.||||...|..........+|++|+|.|..+.
T Consensus        49 ----~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~   88 (167)
T d1xtqa1          49 ----GQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSI   88 (167)
T ss_dssp             ----TEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCH
T ss_pred             ----cEEEEeeecccccccccccccchhhhhhhhhhhhcccchh
Confidence                1126788999999988876566777899999999999875

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=98.68  E-value=2.2e-08  Score=74.20  Aligned_cols=86  Identities=16%  Similarity=0.051  Sum_probs=53.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      |...|+++|..++|||||+++|....-.   .+..  .|+...+.. .+ ..                            
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~---~~~~--~T~~~~~~~-~~-~~----------------------------   47 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFV---EDYE--PTKADSYRK-KV-VL----------------------------   47 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCC---SCCC--TTCCEEEEE-EE-EE----------------------------
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCC---cccC--Ccccccccc-cc-cc----------------------------
Confidence            4567999999999999999999742210   0000  011111100 00 00                            


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          ......+.+.|+||+.++........+.+|++++|+|..+.
T Consensus        48 ----~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   88 (168)
T d1u8za_          48 ----DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM   88 (168)
T ss_dssp             ----TTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             ----ccccccccccccccccchhhhhhhcccccceeEEEeeccch
Confidence                01126788999999999887777778899999999999875

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.67  E-value=3.4e-08  Score=73.28  Aligned_cols=88  Identities=16%  Similarity=0.102  Sum_probs=57.7

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      .+..+|+++|.+++|||||+++|+...-.   .+...  |+...+.....+.                           .
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~---~~~~~--t~~~~~~~~~~~~---------------------------~   51 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFD---TQLFH--TIGVEFLNKDLEV---------------------------D   51 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCC---C------CCSEEEEEEEEEE---------------------------T
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCC---Ccccc--ceeeeeeeeeeee---------------------------c
Confidence            34568999999999999999999842211   11011  1111110000000                           0


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            .....+.+.|+||...+..........+|+++++.|....
T Consensus        52 ------~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~   91 (174)
T d1wmsa_          52 ------GHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDS   91 (174)
T ss_dssp             ------TEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCH
T ss_pred             ------CceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecc
Confidence                  0115678999999999888888899999999999999864

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.67  E-value=1.6e-08  Score=74.55  Aligned_cols=84  Identities=17%  Similarity=0.122  Sum_probs=56.7

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      .+|+++|..++|||||+++|++..-.   .+  ...++...+.....                            ..   
T Consensus         4 ~Ki~viG~~~vGKTsli~~l~~~~~~---~~--~~~~~~~~~~~~~~----------------------------~~---   47 (166)
T d1ctqa_           4 YKLVVVGAGGVGKSALTIQLIQNHFV---DE--YDPTIEDSYRKQVV----------------------------ID---   47 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCC---CS--CCCCSEEEEEEEEE----------------------------ET---
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC---Cc--cCCccceeecccee----------------------------ee---
Confidence            56999999999999999999853211   00  00111111110000                            00   


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....+.+.|+||...|..........+|++++|.|+.+.
T Consensus        48 ---~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~   87 (166)
T d1ctqa_          48 ---GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT   87 (166)
T ss_dssp             ---TEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             ---ceeeeeeeeeccCccccccchhhhhhcccccceeeccccc
Confidence               1126688999999999988888888999999999999875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=1.7e-08  Score=74.99  Aligned_cols=37  Identities=14%  Similarity=0.095  Sum_probs=32.0

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|++|+..+..........+|++++|+|..+.
T Consensus        52 ~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~   88 (173)
T d2a5ja1          52 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRR   88 (173)
T ss_dssp             EEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCH
T ss_pred             EEEEeecccCccchhhHHHHHhhccCEEEEEEeecCh
Confidence            6789999999998877666777899999999999874

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.64  E-value=5.6e-09  Score=77.84  Aligned_cols=62  Identities=16%  Similarity=0.180  Sum_probs=37.0

Q ss_pred             ceEEEeeC---CChhHHHHHHHhccccCCeEEEEEEcCCCc----cccccccc----chhhHHHHhHhccchhhh
Q psy1174         104 RHVSFVDC---PGHDILMATMLNGAAVMDAALLLIGCDNAA----KTPEIVDC----PGHDILMATMLNGAAVMD  167 (182)
Q Consensus       104 ~~i~lIDt---PGh~~f~~~~~~~~~~aD~ailVVda~~g~----~~~qt~e~----l~~~il~~~~~nk~d~~~  167 (182)
                      ..+.++|+   +|+++|+.  ...+..+|++|+|.|..+..    +.....+.    ..+.++.+.+.||+|+.+
T Consensus        53 ~~~~~~d~~~~~g~e~~~~--~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~  125 (172)
T d2g3ya1          53 ATIILLDMWENKGENEWLH--DHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR  125 (172)
T ss_dssp             EEEEEECCTTTTHHHHHHH--HCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGG
T ss_pred             eeeeeeccccccccccccc--cccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccc
Confidence            44566775   46777753  35678999999999998642    00000000    012244456689999754

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=2.6e-08  Score=73.69  Aligned_cols=37  Identities=14%  Similarity=0.171  Sum_probs=29.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|+||..+|..........+|++++|+|....
T Consensus        53 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   89 (171)
T d2erya1          53 ARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDR   89 (171)
T ss_dssp             EEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCH
T ss_pred             cccccccccccccccccccccccccceEEEeeccccc
Confidence            5789999999999888777888999999999999874

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.60  E-value=4.2e-08  Score=79.84  Aligned_cols=36  Identities=19%  Similarity=0.233  Sum_probs=24.1

Q ss_pred             ceEEEeeCCChhH-------HHHHHHhccccCCeEEEEEEcCC
Q psy1174         104 RHVSFVDCPGHDI-------LMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       104 ~~i~lIDtPGh~~-------f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      .++.++|+||--.       .....+..++.+|+++.||||..
T Consensus        71 ~~i~~~D~pGli~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             EEEEEEECC---------------CCCSSTTCSEEEEEEETTC
T ss_pred             ccEEEEECCCcccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            6799999999532       34445566789999999999975

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.59  E-value=1.8e-08  Score=75.65  Aligned_cols=79  Identities=15%  Similarity=0.091  Sum_probs=49.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSC   96 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (182)
                      .+.|.++|..|+|||||+.+|.      +.+  .+.-|+......+.                                 
T Consensus         2 ~iKivllG~~~vGKTsll~r~~------f~~--~~~pTiG~~~~~~~---------------------------------   40 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR------IIH--GQDPTKGIHEYDFE---------------------------------   40 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH------HHH--SCCCCSSEEEEEEE---------------------------------
T ss_pred             eEEEEEECCCCCCHHHHHHHHh------cCC--CCCCeeeeEEEEEe---------------------------------
Confidence            3578999999999999999993      111  11112221111111                                 


Q ss_pred             CCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          97 TGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        97 ~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .....+.+.|++|+..+..........++++++++|..+.
T Consensus        41 ----~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (200)
T d1zcba2          41 ----IKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEF   80 (200)
T ss_dssp             ----ETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCT
T ss_pred             ----eeeeeeeeecccceeeecccccccccccceeEEEEEcCCc
Confidence                1126799999999999998888888999999999999875

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=3.4e-08  Score=73.93  Aligned_cols=37  Identities=11%  Similarity=0.056  Sum_probs=33.1

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.+.|++|+..|.......+..+|++++|+|+++.
T Consensus        53 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   89 (183)
T d1mh1a_          53 VNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSP   89 (183)
T ss_dssp             EEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCH
T ss_pred             eEEEeecccccccchhhhhhcccccceeeeeeccchH
Confidence            6788999999999988877788999999999999874

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=2.9e-08  Score=73.21  Aligned_cols=86  Identities=14%  Similarity=0.019  Sum_probs=57.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSS   95 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (182)
                      +...|+++|..++|||||+++|+...-.   .+  ...++...+.. .+ .                             
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~---~~--~~~t~~~~~~~-~~-~-----------------------------   45 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFV---EK--YDPTIEDSYRK-QV-E-----------------------------   45 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCC---CS--CCCCSEEEEEE-EE-E-----------------------------
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCC---Cc--cCCccccccce-eE-E-----------------------------
Confidence            3457999999999999999999843210   00  00111111100 00 0                             


Q ss_pred             CCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          96 CTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        96 ~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .......+.+.|++|+..+..........+|++|+|+|+.+.
T Consensus        46 ---~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   87 (167)
T d1c1ya_          46 ---VDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQ   87 (167)
T ss_dssp             ---SSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCH
T ss_pred             ---eeeeEEEeccccccCcccccccccccccccceeEEeeeccch
Confidence               001126789999999999888777788999999999999975

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.56  E-value=5.2e-08  Score=73.07  Aligned_cols=80  Identities=14%  Similarity=0.095  Sum_probs=51.3

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeecccc-ceeeecCCCCCCCCcccccCCCCCCCCCcccC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYAN-AKIYKCDNEKCSRPACYISGRSNKDDSFPCLR   93 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (182)
                      .|..+|+++|..++|||||++++++......     . .+....+.. +.+                             
T Consensus         3 ~p~~ki~vlG~~~vGKTsLi~~~~~~~f~~~-----~-~t~~~~~~~~i~v-----------------------------   47 (175)
T d2bmja1           3 IPELRLGVLGDARSGKSSLIHRFLTGSYQVL-----E-KTESEQYKKEMLV-----------------------------   47 (175)
T ss_dssp             CCEEEEEEECCTTTTHHHHHHHHHHSCCCCC-----C-CSSCEEEEEEEEE-----------------------------
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHhCCCCCc-----C-CccceeEEEEeec-----------------------------
Confidence            4567899999999999999999985321100     0 000000100 000                             


Q ss_pred             CCCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          94 SSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        94 ~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                            ......+.+.||||+.++..     .+.+|++|+|.|.++.
T Consensus        48 ------~~~~~~l~i~Dt~g~~~~~~-----~~~ad~~ilVfd~~~~   83 (175)
T d2bmja1          48 ------DGQTHLVLIREEAGAPDAKF-----SGWADAVIFVFSLEDE   83 (175)
T ss_dssp             ------TTEEEEEEEEECSSCCCHHH-----HHHCSEEEEEEETTCH
T ss_pred             ------CceEEEEEEeeccccccccc-----ccccceeEEEeecccc
Confidence                  01126688899999977642     4568999999999875

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.54  E-value=5.3e-08  Score=69.73  Aligned_cols=37  Identities=11%  Similarity=0.091  Sum_probs=31.9

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      .++.+.|++|+..+..........++++++++|..+-
T Consensus        44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~   80 (166)
T d2qtvb1          44 IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADP   80 (166)
T ss_dssp             CCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCG
T ss_pred             eeEEEEeeccchhhhhhHhhhhhheeeeeeeccccch
Confidence            5688999999988887777778999999999999864

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=98.53  E-value=4.5e-08  Score=72.01  Aligned_cols=83  Identities=11%  Similarity=0.037  Sum_probs=53.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      ++..+|+++|.+|+|||||+++|.+....           .........                               
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~-----------~~~~~~~~~-------------------------------   50 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-----------HTSPTIGSN-------------------------------   50 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-----------EEECCSCSS-------------------------------
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCC-----------cccccccee-------------------------------
Confidence            34478999999999999999999863211           000000000                               


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                       .........++.+.|++|+..+..........++++++|+|..+-
T Consensus        51 -~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~   95 (177)
T d1zj6a1          51 -VEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDR   95 (177)
T ss_dssp             -CEEEEETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCT
T ss_pred             -EEEEeecceEEEEeccccccccccchhhhhccceeeeeecccccc
Confidence             000001126789999999987777667777889999999999865

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=98.53  E-value=4.8e-08  Score=71.91  Aligned_cols=31  Identities=13%  Similarity=0.232  Sum_probs=25.3

Q ss_pred             cccccCCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          10 NWVSNEISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        10 ~~~~~~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +.+.+-..++|+++|++|+|||||+++|++.
T Consensus         9 ~~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_           9 RHLPSDTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             GGSSCSCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             hHCCCccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3344445678999999999999999999864

>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=98.51  E-value=6.1e-08  Score=72.63  Aligned_cols=37  Identities=16%  Similarity=0.079  Sum_probs=32.6

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|++|++.|..........+|++|+|.|..+.
T Consensus        50 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   86 (179)
T d1m7ba_          50 IELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP   86 (179)
T ss_dssp             EEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCH
T ss_pred             EeeccccccccccccccccchhhhhhhhheeeecccC
Confidence            6788999999999887666778999999999999875

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.51  E-value=1e-07  Score=70.34  Aligned_cols=83  Identities=14%  Similarity=0.119  Sum_probs=53.1

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      +.|+++|..++|||||+++++...-   ..+...  |+...+.....+                                
T Consensus         3 iKi~lvG~~~vGKTsli~r~~~~~f---~~~~~p--Ti~~~~~~~~~~--------------------------------   45 (168)
T d2atva1           3 VKLAIFGRAGVGKSALVVRFLTKRF---IWEYDP--TLESTYRHQATI--------------------------------   45 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCC---CSCCCT--TCCEEEEEEEEE--------------------------------
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCC---CCccCC--ceeccccccccc--------------------------------
Confidence            5689999999999999999984321   001001  111111100000                                


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                        ......+.+.||||...+. .+......+|++++|.|..+.
T Consensus        46 --~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~~   85 (168)
T d2atva1          46 --DDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITDR   85 (168)
T ss_dssp             --TTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTCH
T ss_pred             --cccceEEEEeecccccccc-cchhhhcccccceeecccCCc
Confidence              0112678999999998775 345566889999999999874

>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=98.48  E-value=4.2e-08  Score=78.77  Aligned_cols=40  Identities=23%  Similarity=0.139  Sum_probs=23.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeee
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKL   57 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~   57 (182)
                      ...+|+|+|.+|+|||||+|+|.+...  .......|+|...
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~~--~~~~~~pG~Tr~~  150 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKNI--AKTGDRPGITTSQ  150 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCC--C------------
T ss_pred             CceEEEEEecCccchhhhhhhhhccce--EEECCcccccccc
Confidence            456799999999999999999997432  1334446666544

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=98.48  E-value=1.1e-07  Score=68.55  Aligned_cols=80  Identities=11%  Similarity=-0.012  Sum_probs=55.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ++|+++|.+|+|||||+++|++......  ....+.....                                        
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~~~~~~--~~~~~~~~~~----------------------------------------   43 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVGEVVTT--IPTIGFNVET----------------------------------------   43 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCCCC--CCCSSEEEEE----------------------------------------
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcce--ecccceeeee----------------------------------------
Confidence            6799999999999999999985321100  0000000000                                        


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                       .......+.+.|.||+..+..........++++++++|....
T Consensus        44 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (169)
T d1upta_          44 -VTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDR   85 (169)
T ss_dssp             -EEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCC
T ss_pred             -eccCceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhc
Confidence             001126789999999999888878888999999999999864

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.45  E-value=2.2e-07  Score=68.35  Aligned_cols=23  Identities=26%  Similarity=0.484  Sum_probs=20.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      -+|+++|++|+|||||+|+|++.
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999974

>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=98.42  E-value=7.5e-08  Score=75.79  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=21.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ....+++|++|+|||||+|+|.+.
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CCeEEEECCCCCCHHHHHHhhcch
Confidence            345799999999999999999864

>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=98.32  E-value=2.2e-07  Score=67.99  Aligned_cols=83  Identities=13%  Similarity=0.096  Sum_probs=51.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRS   94 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (182)
                      +...+|+++|.+|+|||||+++|.+.....      ...+.......                                 
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~------~~~~~~~~~~~---------------------------------   51 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ------HVPTLHPTSEE---------------------------------   51 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC------------CCCCCSCEE---------------------------------
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcc------eecccccceeE---------------------------------
Confidence            445689999999999999999998643210      00000000000                                 


Q ss_pred             CCCCcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          95 SCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        95 ~~~~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                          .......+.+.|++|+..+...........+++++++|..+.
T Consensus        52 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~   93 (186)
T d1f6ba_          52 ----LTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADH   93 (186)
T ss_dssp             ----EEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCG
T ss_pred             ----EEecccccccccccchhhhhhHHhhhhcccceeeeeeeccCc
Confidence                001125678899999988877777778899999999998864

>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=98.28  E-value=3.3e-07  Score=74.13  Aligned_cols=36  Identities=17%  Similarity=0.194  Sum_probs=27.9

Q ss_pred             ceEEEeeCCChh-------HHHHHHHhccccCCeEEEEEEcCC
Q psy1174         104 RHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIGCDN  139 (182)
Q Consensus       104 ~~i~lIDtPGh~-------~f~~~~~~~~~~aD~ailVVda~~  139 (182)
                      ..+.++|.||..       -+......-++.+|+.+.|||+..
T Consensus        75 ~~i~~~DvaGLv~gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          75 AFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             EEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccceeeeccccccccccccccHHHHHHHhhccceeEEEEeccC
Confidence            468999999952       233455667899999999999976

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.27  E-value=1.4e-07  Score=73.04  Aligned_cols=37  Identities=8%  Similarity=0.095  Sum_probs=33.0

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.|+.|+..+..........++++++|+|....
T Consensus        47 ~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~   83 (221)
T d1azta2          47 VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSY   83 (221)
T ss_dssp             EEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGG
T ss_pred             EEEEEEecCccceeccchhhhcccccceEEEEEcccc
Confidence            6789999999999988888888999999999999853

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.26  E-value=8.6e-07  Score=70.93  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=22.0

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .+.|+|+|+.++|||||+|+|+|..
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~   50 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCC
Confidence            4568999999999999999999753

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.26  E-value=2.6e-07  Score=74.02  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=20.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      ..|++||-+++|||||+++|++.
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHCC
Confidence            46999999999999999999854

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.26  E-value=3.5e-07  Score=73.68  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.2

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .+.|+|+|+.++|||||+|+|+|..
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~~   48 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGRD   48 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTSC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhCCC
Confidence            3569999999999999999999864

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.21  E-value=8.2e-07  Score=73.21  Aligned_cols=25  Identities=28%  Similarity=0.266  Sum_probs=22.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....+|+|.|++|+|||||+++|..
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHH
Confidence            3567899999999999999999974

>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=98.21  E-value=1.2e-07  Score=74.87  Aligned_cols=24  Identities=29%  Similarity=0.261  Sum_probs=19.9

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      ...+++|++|+|||||+|+|++..
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            456899999999999999999753

>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=98.10  E-value=1.7e-06  Score=63.80  Aligned_cols=37  Identities=11%  Similarity=0.130  Sum_probs=33.3

Q ss_pred             ceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                      ..+.+.||.|...|..........+|++++|+|..+.
T Consensus        42 ~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~   78 (195)
T d1svsa1          42 LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDY   78 (195)
T ss_dssp             EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGG
T ss_pred             eeeeeeccccccccccchhhcccCCceeeeEEeeccc
Confidence            6789999999999998877788999999999999864

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.06  E-value=1.5e-06  Score=64.45  Aligned_cols=79  Identities=14%  Similarity=0.070  Sum_probs=55.8

Q ss_pred             cceEEECCCCCChHHHHhHHhcCCccchhhHhhhceeeeeccccceeeecCCCCCCCCcccccCCCCCCCCCcccCCCCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCT   97 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (182)
                      ..|+++|..++|||||+.+|....-.       .-.|+...+..   +.                               
T Consensus         3 ~Kiv~lG~~~vGKTsll~r~~~~~~~-------~~pTiG~~~~~---~~-------------------------------   41 (200)
T d2bcjq2           3 LKLLLLGTGESGKSTFIKQMRIIHGS-------GVPTTGIIEYP---FD-------------------------------   41 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTSS-------CCCCCSCEEEE---EE-------------------------------
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCC-------CCceeeEEEEE---Ee-------------------------------
Confidence            56899999999999999999632110       00121111100   00                               


Q ss_pred             CcccccceEEEeeCCChhHHHHHHHhccccCCeEEEEEEcCCC
Q psy1174          98 GRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNA  140 (182)
Q Consensus        98 ~~~~~~~~i~lIDtPGh~~f~~~~~~~~~~aD~ailVVda~~g  140 (182)
                         .....+.+.|++|+..+..........++++++++|+.+.
T Consensus        42 ---~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~   81 (200)
T d2bcjq2          42 ---LQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEY   81 (200)
T ss_dssp             ---CSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGG
T ss_pred             ---ccceeeeeccccccccccccccccccccceeeEeeeccch
Confidence               0126789999999999998888888999999999999875

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.96  E-value=1.1e-05  Score=66.17  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=22.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++|+|.|++|+|||||+++|+.
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHH
Confidence            4567899999999999999999974

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.55  E-value=1.9e-06  Score=66.96  Aligned_cols=26  Identities=19%  Similarity=0.153  Sum_probs=21.3

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHh
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..++..|+++|+.|+||||.+--|.
T Consensus         7 ~~~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           7 PPEPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            34556678999999999999988775

>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=97.53  E-value=1.1e-05  Score=62.50  Aligned_cols=25  Identities=16%  Similarity=0.175  Sum_probs=21.1

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+.+..|+++|+.|+||||.+.-|.
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHH
Confidence            4455678999999999999998885

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.46  E-value=4.2e-05  Score=59.03  Aligned_cols=29  Identities=17%  Similarity=0.248  Sum_probs=19.3

Q ss_pred             cccccCCCcceEEECCCCCChHHHHhHHh
Q psy1174          10 NWVSNEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        10 ~~~~~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+..+.+..|+++|++|+||||.+--|.
T Consensus         5 ~~~~~k~p~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2           5 KVIPDKIPYVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             CCSCSSSSEEEEEECSCCC----HHHHHH
T ss_pred             ccCCCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            34455666778999999999999988775

>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=97.42  E-value=3.6e-05  Score=55.13  Aligned_cols=22  Identities=18%  Similarity=0.215  Sum_probs=20.0

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.++|+|++|||||||+++|+.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999974

>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=97.38  E-value=7.9e-06  Score=63.08  Aligned_cols=22  Identities=18%  Similarity=0.247  Sum_probs=19.1

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...|+++|+.|+||||.+--|.
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA   27 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLG   27 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4568999999999999988775

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.32  E-value=4.6e-05  Score=55.24  Aligned_cols=22  Identities=32%  Similarity=0.234  Sum_probs=20.1

Q ss_pred             ceEEECCCCCChHHHHhHHhcC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      +|+|+|++|+|||||+.+|++.
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhc
Confidence            5899999999999999999864

>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=97.29  E-value=4.5e-05  Score=54.79  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=19.9

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++|+|+|++|+|||||+++|.
T Consensus         8 K~I~i~G~~GsGKTTla~~La   28 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLA   28 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999997

>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=97.25  E-value=8.3e-05  Score=53.15  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=20.3

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+++|++||||||+++.|.
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La   25 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELA   25 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            5679999999999999999996

>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=97.23  E-value=8.5e-06  Score=62.83  Aligned_cols=37  Identities=24%  Similarity=0.318  Sum_probs=25.5

Q ss_pred             ceEEEeeCCChh----HHHHHHH--hccccCCeEEEEEEcCCC
Q psy1174         104 RHVSFVDCPGHD----ILMATML--NGAAVMDAALLLIGCDNA  140 (182)
Q Consensus       104 ~~i~lIDtPGh~----~f~~~~~--~~~~~aD~ailVVda~~g  140 (182)
                      +.+.+|||||..    ..+.++.  ......|-++||+|+..|
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~  135 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG  135 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccc
Confidence            678999999952    2333222  223567899999999987

>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=97.20  E-value=8.7e-05  Score=54.97  Aligned_cols=27  Identities=19%  Similarity=0.174  Sum_probs=22.5

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHh
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      |.+..+..|.|+|++||||||++..|.
T Consensus         1 ~~~~kp~iI~i~G~pGSGKsT~a~~La   27 (194)
T d1qf9a_           1 MEKSKPNVVFVLGGPGSGKGTQCANIV   27 (194)
T ss_dssp             CCCCCCEEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHH
Confidence            344455678999999999999999996

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.03  E-value=0.00016  Score=52.66  Aligned_cols=24  Identities=25%  Similarity=0.227  Sum_probs=21.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..++.|+|.|++|||||||++.|.
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~   43 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLS   43 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            345679999999999999999996

>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=97.02  E-value=0.00019  Score=51.44  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +..+|++.|++||||||+.+.|..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            346799999999999999999963

>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=96.99  E-value=0.00016  Score=56.72  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=22.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.|+|+|++|||||||++.|.|..
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            33458999999999999999998754

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.94  E-value=0.00021  Score=51.67  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=19.0

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++|+|..|||||||+++|+.
T Consensus         3 ii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            478999999999999999974

>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=96.89  E-value=0.00021  Score=55.62  Aligned_cols=23  Identities=26%  Similarity=0.485  Sum_probs=20.6

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCcchhhHhccCCC
Confidence            58999999999999999998654

>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=96.87  E-value=0.00024  Score=55.65  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|+.|||||||++.|.|..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34468999999999999999998654

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.86  E-value=0.00024  Score=53.88  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|+|||||+++|.|..
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            3458999999999999999999764

>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=96.85  E-value=0.00026  Score=55.21  Aligned_cols=24  Identities=29%  Similarity=0.558  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||++.|.|..
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            358999999999999999998754

>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=96.84  E-value=0.00022  Score=56.13  Aligned_cols=25  Identities=24%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|++|||||||++.|.|..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            3458999999999999999998654

>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=96.83  E-value=0.00026  Score=55.72  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=21.7

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++|+|++|||||||++.|.|..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhccc
Confidence            3458999999999999999998654

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.0003  Score=50.15  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=19.8

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ++|.|.|++|+|||||+.+|+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999999973

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.79  E-value=0.00032  Score=55.89  Aligned_cols=26  Identities=19%  Similarity=0.286  Sum_probs=22.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhcC
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      .+...|+|+|+..+|||||+|.|.+.
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            34557899999999999999999874

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.78  E-value=0.00033  Score=49.19  Aligned_cols=20  Identities=35%  Similarity=0.277  Sum_probs=18.2

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|.+.|++|||||||++.|.
T Consensus         4 lIii~G~pGsGKTTla~~L~   23 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFI   23 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47899999999999999986

>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=96.78  E-value=0.00032  Score=54.92  Aligned_cols=23  Identities=26%  Similarity=0.544  Sum_probs=20.8

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            48999999999999999998754

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00036  Score=48.71  Aligned_cols=21  Identities=24%  Similarity=0.317  Sum_probs=19.1

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+|.++|++|+||||+...|.
T Consensus         3 k~I~l~G~~GsGKSTvak~La   23 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLA   23 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            368999999999999999996

>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=96.74  E-value=0.0003  Score=56.22  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||+++|+|..
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            358999999999999999998754

>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=96.73  E-value=0.00035  Score=54.67  Aligned_cols=23  Identities=26%  Similarity=0.525  Sum_probs=20.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            48999999999999999998764

>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=96.73  E-value=0.0003  Score=55.07  Aligned_cols=24  Identities=29%  Similarity=0.517  Sum_probs=21.2

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCc
Confidence            348999999999999999998754

>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=96.71  E-value=0.00036  Score=54.52  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            48999999999999999999764

>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=96.71  E-value=0.00046  Score=49.08  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.|.+.|.+||||||+.++|..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34578889999999999999974

>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=96.70  E-value=0.00043  Score=51.82  Aligned_cols=22  Identities=36%  Similarity=0.400  Sum_probs=20.0

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..|+|.|++|||||||.+.|.
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~   23 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIV   23 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            5679999999999999999885

>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=96.68  E-value=0.00041  Score=54.32  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.6

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            46899999999999999999765

>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=96.67  E-value=0.0004  Score=54.81  Aligned_cols=24  Identities=29%  Similarity=0.405  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++|+|+.|||||||+++|.|..
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            458999999999999999998754

>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=96.66  E-value=0.00027  Score=55.05  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=20.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            48999999999999999998754

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.66  E-value=0.00045  Score=50.84  Aligned_cols=22  Identities=27%  Similarity=0.154  Sum_probs=19.9

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.+|.++|++||||||++..|.
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            4569999999999999999986

>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=96.66  E-value=0.00032  Score=54.39  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.7

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            48999999999999999999753

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.65  E-value=0.00047  Score=49.33  Aligned_cols=21  Identities=14%  Similarity=0.025  Sum_probs=19.0

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.|+|.|.+||||||+++.|.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            468999999999999999985

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.63  E-value=0.00048  Score=48.65  Aligned_cols=21  Identities=29%  Similarity=0.268  Sum_probs=19.0

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|.+.|++||||||+++.|..
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            478999999999999999974

>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=96.62  E-value=0.00034  Score=55.20  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=21.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcCC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      +.-.++|+|++|||||||++.|.|..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            33458999999999999999998654

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.62  E-value=0.00049  Score=49.83  Aligned_cols=20  Identities=25%  Similarity=0.200  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|+|+|++||||||++..|.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La   21 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIV   21 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999986

>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=96.60  E-value=0.00048  Score=53.70  Aligned_cols=25  Identities=32%  Similarity=0.413  Sum_probs=21.8

Q ss_pred             CcceEEECCCCCChHHHHhHHhcCC
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .-.++++|+.|||||||+++|.|..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458999999999999999999764

>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=96.58  E-value=0.00056  Score=48.81  Aligned_cols=24  Identities=29%  Similarity=0.321  Sum_probs=20.6

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....|.+.|++||||||+...|..
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345689999999999999999974

>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=96.58  E-value=0.00051  Score=50.54  Aligned_cols=29  Identities=14%  Similarity=0.172  Sum_probs=24.1

Q ss_pred             ccccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          11 WVSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        11 ~~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++.+..|+|-|..||||||+++.|..
T Consensus         3 ~~~~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           3 YAEGTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             BTTTCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             ccCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            34456667899999999999999999973

>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=96.58  E-value=0.0005  Score=54.03  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             ceEEECCCCCChHHHHhHHhcCC
Q psy1174          19 YPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .++++|+.|||||||+++|.|..
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            48999999999999999999764

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.57  E-value=0.00069  Score=48.11  Aligned_cols=24  Identities=17%  Similarity=0.164  Sum_probs=20.9

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++...|.++|.+||||||+..+|.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            445678899999999999999886

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.51  E-value=0.00067  Score=49.90  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=19.5

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..|+++|.+|||||||.++|.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~   23 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLT   23 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3458999999999999999997

>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=96.46  E-value=0.0011  Score=48.71  Aligned_cols=32  Identities=22%  Similarity=0.157  Sum_probs=23.7

Q ss_pred             CCccccccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174           7 LQSNWVSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus         7 ~~~~~~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .....+..++ ..|.++|.+||||||++..|..
T Consensus         5 ~~~~~~~~~p-~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2           5 ESSSLLSPNP-EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             TTSCSSCSSC-CEEEEECCTTSSHHHHHHHHTG
T ss_pred             CccccCCCCC-EEEEEECCCCCCHHHHHHHHHH
Confidence            3334444443 4688999999999999999863

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.44  E-value=0.00081  Score=49.66  Aligned_cols=22  Identities=27%  Similarity=0.222  Sum_probs=19.5

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.|+|+|++|+||+||++.|..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3489999999999999999973

>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=96.43  E-value=0.00092  Score=47.55  Aligned_cols=24  Identities=21%  Similarity=0.205  Sum_probs=20.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+..+.+.|++||||||+...|.
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La   27 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVA   27 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345567899999999999999996

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.43  E-value=0.00087  Score=49.18  Aligned_cols=22  Identities=18%  Similarity=0.210  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+++|++||||||+...|.
T Consensus         3 ~~riil~G~pGSGKsT~a~~La   24 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLA   24 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHH
Confidence            4578899999999999999997

>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=96.41  E-value=0.00036  Score=54.74  Aligned_cols=24  Identities=29%  Similarity=0.548  Sum_probs=21.3

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      -.++++|+.|||||||+++|.|..
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            358999999999999999998754

>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=96.39  E-value=0.001  Score=49.07  Aligned_cols=24  Identities=21%  Similarity=0.127  Sum_probs=21.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ....|.++|++||||||+...|..
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            355789999999999999999973

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.37  E-value=0.00088  Score=48.75  Aligned_cols=20  Identities=20%  Similarity=0.169  Sum_probs=18.9

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|+++|++||||||+...|.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La   21 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLA   21 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999996

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.36  E-value=0.00093  Score=48.16  Aligned_cols=20  Identities=35%  Similarity=0.473  Sum_probs=18.7

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      ||+++|++||||||+...|.
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            68999999999999999996

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.33  E-value=0.00097  Score=47.99  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=19.0

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++|+++|.+|+||||+...|.
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            468899999999999999886

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.29  E-value=0.001  Score=48.54  Aligned_cols=20  Identities=25%  Similarity=0.180  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|.++|++||||||+...|.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La   21 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIV   21 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58899999999999999997

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.29  E-value=0.0011  Score=48.67  Aligned_cols=21  Identities=24%  Similarity=0.143  Sum_probs=19.3

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|.|+|++||||||....|.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La   22 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIV   22 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            568999999999999999886

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.28  E-value=0.0013  Score=48.80  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=20.0

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+|+++|++||||||+...|.
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La   27 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRIT   27 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             ceeEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999999997

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.22  E-value=0.0012  Score=48.95  Aligned_cols=20  Identities=30%  Similarity=0.232  Sum_probs=18.5

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|+|+||+|+|||||++.|.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~   21 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLF   21 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            37899999999999999996

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.20  E-value=0.0012  Score=48.26  Aligned_cols=21  Identities=38%  Similarity=0.349  Sum_probs=18.9

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      -|+++|++|||||||++.|..
T Consensus         4 iivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999999973

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.16  E-value=0.0012  Score=47.98  Aligned_cols=20  Identities=25%  Similarity=0.152  Sum_probs=18.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|+++|++||||||....|.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La   21 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIM   21 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68899999999999999996

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.15  E-value=0.0015  Score=48.63  Aligned_cols=23  Identities=35%  Similarity=0.312  Sum_probs=20.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...+|+|-|++||||||+...|.
T Consensus         2 k~i~IaIdGp~GsGKgT~ak~La   24 (223)
T d1q3ta_           2 KTIQIAIDGPASSGKSTVAKIIA   24 (223)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            35678889999999999999997

>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=96.14  E-value=0.0062  Score=48.03  Aligned_cols=28  Identities=14%  Similarity=0.311  Sum_probs=23.9

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.++...|+.++|++|+|||+++..|..
T Consensus        34 L~r~~k~n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          34 LCRRRKNNPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             HTSSSSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             HhcCccCCcEEECCCCCcHHHHHHHHHH
Confidence            4456667899999999999999999873

>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=96.12  E-value=0.0014  Score=48.06  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=20.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+..|||.|.+||||||+++.|.
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35678999999999999999886

>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=96.05  E-value=0.0014  Score=53.08  Aligned_cols=24  Identities=25%  Similarity=0.237  Sum_probs=21.6

Q ss_pred             cceEEECCCCCChHHHHhHHhcCC
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISGVQ   41 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g~~   41 (182)
                      .||.|.|++|||||||+++|++..
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            579999999999999999999654

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.00  E-value=0.002  Score=46.91  Aligned_cols=21  Identities=24%  Similarity=0.164  Sum_probs=19.2

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+|+++|++||||||+...|.
T Consensus         3 mrIvl~G~pGSGKtT~a~~La   23 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQ   23 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            468899999999999999996

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=95.91  E-value=0.0017  Score=47.84  Aligned_cols=21  Identities=24%  Similarity=0.215  Sum_probs=19.1

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|.++|++||||||++..|.
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La   29 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIV   29 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            458899999999999999997

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.89  E-value=0.0022  Score=46.26  Aligned_cols=20  Identities=20%  Similarity=0.177  Sum_probs=18.2

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|.++|++||||||+...|.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            47899999999999999996

>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=95.85  E-value=0.0022  Score=47.16  Aligned_cols=21  Identities=10%  Similarity=0.126  Sum_probs=19.0

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .|+++||+|+||+||++.|+.
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999973

>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=95.83  E-value=0.0021  Score=51.78  Aligned_cols=24  Identities=33%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.+..|+|.|.++||||||.+.|.
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHH
Confidence            456789999999999999988874

>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=95.79  E-value=0.007  Score=46.73  Aligned_cols=25  Identities=16%  Similarity=0.030  Sum_probs=21.5

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.+.|.+.|++|+|||+|+.+|..
T Consensus        38 ~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          38 TPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHhh
Confidence            3456799999999999999999974

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=95.71  E-value=0.0028  Score=48.15  Aligned_cols=24  Identities=21%  Similarity=0.081  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+..|.+.|++|+|||||+.+|.+
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            445689999999999999999973

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.61  E-value=0.003  Score=47.60  Aligned_cols=21  Identities=19%  Similarity=0.211  Sum_probs=18.8

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .-|+|+||+|+|||||++.|+
T Consensus         3 ~livi~GPSG~GK~tl~~~L~   23 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALL   23 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            347899999999999999997

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.55  E-value=0.0034  Score=46.24  Aligned_cols=20  Identities=30%  Similarity=0.313  Sum_probs=18.4

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|+|.||+||||||+...|.
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            57888999999999999996

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.50  E-value=0.0017  Score=46.93  Aligned_cols=21  Identities=29%  Similarity=0.226  Sum_probs=18.6

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|.++|.+||||||+.+.|.
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La   40 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALE   40 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            467788999999999999996

>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=95.48  E-value=0.0031  Score=47.40  Aligned_cols=27  Identities=19%  Similarity=0.058  Sum_probs=22.2

Q ss_pred             ccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          13 SNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        13 ~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+....++.+.|++|+|||||+.+|..
T Consensus        41 ~~~~~~~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          41 KTGSMPHLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             HHTCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HcCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            344456789999999999999999974

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=95.47  E-value=0.0032  Score=44.95  Aligned_cols=19  Identities=32%  Similarity=0.291  Sum_probs=17.2

Q ss_pred             eEEECCCCCChHHHHhHHh
Q psy1174          20 PGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~   38 (182)
                      |+|.|.+||||||+++.|.
T Consensus         4 ivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5678999999999999996

>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=95.41  E-value=0.0045  Score=49.35  Aligned_cols=25  Identities=24%  Similarity=0.114  Sum_probs=21.3

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++.+.-|+|.|..|||||||...|.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            4456789999999999999998774

>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=95.37  E-value=0.0026  Score=50.83  Aligned_cols=23  Identities=22%  Similarity=0.226  Sum_probs=17.3

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +++.|+|.|.+||||||+.++|.
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            45679999999999999999875

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=95.15  E-value=0.0066  Score=45.72  Aligned_cols=24  Identities=21%  Similarity=0.123  Sum_probs=21.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ...++.+.||+|+|||||+.+|.+
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            456789999999999999999974

>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=95.15  E-value=0.0056  Score=45.69  Aligned_cols=28  Identities=14%  Similarity=0.118  Sum_probs=22.6

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.+....++.+.|++|+|||||+.+|..
T Consensus        28 i~~~~~~~lll~Gp~G~GKTtl~~~i~~   55 (237)
T d1sxjd2          28 LKSANLPHMLFYGPPGTGKTSTILALTK   55 (237)
T ss_dssp             TTCTTCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             HHcCCCCeEEEECCCCCChHHHHHHHHH
Confidence            3344456689999999999999999974

>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=95.06  E-value=0.0051  Score=46.36  Aligned_cols=29  Identities=24%  Similarity=0.145  Sum_probs=24.6

Q ss_pred             cccccCCCcceEEECCCCCChHHHHhHHh
Q psy1174          10 NWVSNEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        10 ~~~~~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.+..+....|-+.|.+|||||||.+.|.
T Consensus        17 ~~~~~~kg~vIwltGlsGsGKTTia~~L~   45 (208)
T d1m7ga_          17 TELRNQRGLTIWLTGLSASGKSTLAVELE   45 (208)
T ss_dssp             HHHHTSSCEEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHhCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            34566677789999999999999999986

>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=95.04  E-value=0.0073  Score=45.35  Aligned_cols=23  Identities=13%  Similarity=0.229  Sum_probs=20.5

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...++.+.|++|+||||++.+|.
T Consensus        42 ~~~~lll~GppGtGKT~l~~~l~   64 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLRKLW   64 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHH
Confidence            44679999999999999999987

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=95.02  E-value=0.0074  Score=45.32  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .....+.+.||+|+||||++.+|.
T Consensus        33 ~~~~~~L~~GPpGtGKT~lA~~la   56 (238)
T d1in4a2          33 EVLDHVLLAGPPGLGKTTLAHIIA   56 (238)
T ss_dssp             CCCCCEEEESSTTSSHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHH
Confidence            345678999999999999999997

>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=95.01  E-value=0.0059  Score=44.81  Aligned_cols=20  Identities=30%  Similarity=0.320  Sum_probs=18.1

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      -|+|-|..||||||+++.|.
T Consensus         2 lI~ieG~dGsGKST~~~~L~   21 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLS   21 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            37899999999999999886

>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=94.86  E-value=0.0066  Score=45.12  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=18.9

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..|||.|.+||||||+++.|.
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            458999999999999999885

>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=94.79  E-value=0.0057  Score=46.50  Aligned_cols=25  Identities=20%  Similarity=0.230  Sum_probs=21.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhcC
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISGV   40 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g~   40 (182)
                      |++...|.|-.|||||||++.|+..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4556789999999999999999853

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.61  E-value=0.0093  Score=47.39  Aligned_cols=26  Identities=15%  Similarity=0.222  Sum_probs=22.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.++..+.++||+|+|||.|+.+|..
T Consensus        46 ~~~~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          46 EVTPKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             HCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHhh
Confidence            34668899999999999999999974

>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=94.59  E-value=0.0071  Score=45.15  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=19.8

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..|+|-|+.||||||+++.|..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999974

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.59  E-value=0.011  Score=44.61  Aligned_cols=24  Identities=17%  Similarity=0.159  Sum_probs=20.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+.+.+.||+|+||||++.+|..
T Consensus        51 ~~~~lll~GPpG~GKTt~a~~la~   74 (253)
T d1sxja2          51 VFRAAMLYGPPGIGKTTAAHLVAQ   74 (253)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            345689999999999999999984

>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=94.57  E-value=0.01  Score=46.05  Aligned_cols=19  Identities=32%  Similarity=0.569  Sum_probs=17.2

Q ss_pred             eEEECCCCCChHHHHhHHh
Q psy1174          20 PGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~   38 (182)
                      -+++|+.|+||||+++||.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            3799999999999999984

>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=94.51  E-value=0.0091  Score=44.48  Aligned_cols=26  Identities=15%  Similarity=0.103  Sum_probs=21.5

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +....++.+.|++|+||||++.+|..
T Consensus        32 ~~~~~~lLl~Gp~G~GKttl~~~la~   57 (227)
T d1sxjc2          32 EGKLPHLLFYGPPGTGKTSTIVALAR   57 (227)
T ss_dssp             TTCCCCEEEECSSSSSHHHHHHHHHH
T ss_pred             cCCCCeEEEECCCCCChhHHHHHHHH
Confidence            34445688999999999999999974

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.48  E-value=0.0095  Score=44.37  Aligned_cols=20  Identities=35%  Similarity=0.468  Sum_probs=18.5

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|+|.|.+||||||.++.|.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            48999999999999999886

>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=94.35  E-value=0.0028  Score=45.13  Aligned_cols=19  Identities=32%  Similarity=0.295  Sum_probs=17.2

Q ss_pred             eEEECCCCCChHHHHhHHh
Q psy1174          20 PGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~   38 (182)
                      .+|+|+.||||||+++||.
T Consensus        27 tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4688999999999999995

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=94.26  E-value=0.0095  Score=44.65  Aligned_cols=23  Identities=22%  Similarity=0.212  Sum_probs=20.0

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ....|.|.|+.|+|||||+..+.
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~~~~   50 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIKIGI   50 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCcHHHHHHHHH
Confidence            44568899999999999999886

>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=94.24  E-value=0.011  Score=44.00  Aligned_cols=26  Identities=19%  Similarity=0.101  Sum_probs=21.3

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +....++.+.|++|+||||++..|..
T Consensus        33 ~~~~~~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          33 DGNMPHMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             SCCCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCeEEEECCCCCCchhhHHHHHH
Confidence            34445689999999999999998863

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=94.24  E-value=0.013  Score=43.98  Aligned_cols=28  Identities=21%  Similarity=0.423  Sum_probs=23.7

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.++...|+.++|++|+|||+++..|..
T Consensus        38 L~r~~k~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          38 LQRRTKNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             HTSSSSCEEEEECCTTSCHHHHHHHHHH
T ss_pred             HhccCCCCeEEEecCCcccHHHHHHHHH
Confidence            4456667899999999999999998863

>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=0.015  Score=46.58  Aligned_cols=18  Identities=44%  Similarity=0.597  Sum_probs=16.6

Q ss_pred             EEECCCCCChHHHHhHHh
Q psy1174          21 GTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        21 ~viG~~~sGKSTLl~~L~   38 (182)
                      +|+|+.||||||+++||.
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            699999999999999984

>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=93.57  E-value=0.017  Score=43.19  Aligned_cols=21  Identities=38%  Similarity=0.452  Sum_probs=19.1

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .-|+|=|..||||||+++.|.
T Consensus         3 k~IviEG~~GsGKST~~~~L~   23 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLT   23 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHH
Confidence            458999999999999999996

>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=93.49  E-value=0.01  Score=49.83  Aligned_cols=24  Identities=17%  Similarity=0.255  Sum_probs=21.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.||.+|||+|+|||-|+++|.+
T Consensus        48 ~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          48 TPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccccEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999964

>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=93.45  E-value=0.025  Score=41.06  Aligned_cols=24  Identities=21%  Similarity=0.257  Sum_probs=20.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ++...|.+-|..|||||||+..|+
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~   54 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGML   54 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEecCCCccHHHHHHHHH
Confidence            344568999999999999999997

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=93.38  E-value=0.025  Score=43.53  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=20.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+..|.+.|++|+|||+|+.+|.+
T Consensus        41 ~~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          41 IPKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             CCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEecCCCCChhHHHHHHHH
Confidence            345689999999999999999984

>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=93.35  E-value=0.019  Score=42.38  Aligned_cols=20  Identities=25%  Similarity=0.268  Sum_probs=17.9

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      -|+|-|..||||||+++.|.
T Consensus         4 fIviEG~dGsGKsT~~~~L~   23 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVV   23 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            37888999999999999886

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.33  E-value=0.026  Score=40.09  Aligned_cols=22  Identities=18%  Similarity=0.415  Sum_probs=19.1

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...+.|.|++|+|||+|+-.|+
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la   44 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLA   44 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHH
Confidence            3457899999999999998886

>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=93.21  E-value=0.027  Score=43.32  Aligned_cols=24  Identities=17%  Similarity=0.160  Sum_probs=21.2

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +++.|.+.|++|+|||+|+.++..
T Consensus        37 ~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          37 PPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceeEEecCCCCCchHHHHHHHH
Confidence            456799999999999999999974

>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=93.20  E-value=0.021  Score=47.03  Aligned_cols=26  Identities=23%  Similarity=0.070  Sum_probs=21.9

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++.--|.|.|++||||||++.+++.
T Consensus       155 ~~~~GliLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         155 KRPHGIILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             TSSSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             hhhhceEEEEcCCCCCccHHHHHHhh
Confidence            34455689999999999999999985

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=93.19  E-value=0.014  Score=44.02  Aligned_cols=19  Identities=42%  Similarity=0.613  Sum_probs=16.5

Q ss_pred             EEECCCCCChHHHHhHHhc
Q psy1174          21 GTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        21 ~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.|++|+||||++.++..
T Consensus        50 ~l~GppGtGKT~l~~~l~~   68 (287)
T d1w5sa2          50 GSIGRVGIGKTTLAKFTVK   68 (287)
T ss_dssp             ECTTCCSSSHHHHHHHHHH
T ss_pred             EeECCCCCCHHHHHHHHHH
Confidence            4469999999999999974

>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=93.13  E-value=0.024  Score=42.52  Aligned_cols=20  Identities=25%  Similarity=0.084  Sum_probs=18.5

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .|+|.|..+|||||+.+.|.
T Consensus         3 iIgiTG~igSGKsTva~~l~   22 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIM   22 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48999999999999999995

>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=93.09  E-value=0.029  Score=43.45  Aligned_cols=24  Identities=33%  Similarity=0.416  Sum_probs=20.8

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .++.+.+.|++|+|||+|+++|..
T Consensus        44 ~~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          44 IPKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEeeCCCCCCccHHHHHHHH
Confidence            445689999999999999999973

>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=92.97  E-value=0.029  Score=41.91  Aligned_cols=23  Identities=22%  Similarity=0.034  Sum_probs=19.9

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..++.+.|++|+||||++.++..
T Consensus        33 ~~~lll~Gp~G~GKTt~~~~la~   55 (252)
T d1sxje2          33 LPHLLLYGPNGTGKKTRCMALLE   55 (252)
T ss_dssp             CCCEEEECSTTSSHHHHHHTHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999999873

>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=92.75  E-value=0.031  Score=41.72  Aligned_cols=21  Identities=24%  Similarity=0.123  Sum_probs=17.9

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +-|+|-|..||||||++..|.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            447888999999999888875

>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=92.64  E-value=0.02  Score=44.45  Aligned_cols=53  Identities=15%  Similarity=0.028  Sum_probs=35.5

Q ss_pred             hHHHHHHHhccccCCeEEEEEEcCCCcccccccc---cchhhHHHHhHhccchhhhHH
Q psy1174         115 DILMATMLNGAAVMDAALLLIGCDNAAKTPEIVD---CPGHDILMATMLNGAAVMDAA  169 (182)
Q Consensus       115 ~~f~~~~~~~~~~aD~ailVVda~~g~~~~qt~e---~l~~~il~~~~~nk~d~~~~~  169 (182)
                      ....+++...+..+|++|.|+||..+ ......+   .+++ .....++||+|+.+..
T Consensus         3 ~ka~r~i~~~i~~~DvIl~V~DaR~P-~ss~~~~l~~~~~~-Kp~IlVlNK~DLv~~~   58 (273)
T d1puja_           3 AKARREVTEKLKLIDIVYELVDARIP-MSSRNPMIEDILKN-KPRIMLLNKADKADAA   58 (273)
T ss_dssp             THHHHHHHHHGGGCSEEEEEEETTST-TTTSCHHHHHHCSS-SCEEEEEECGGGSCHH
T ss_pred             HHHHHHHHHHHHhCCEEEEEEECCCC-CCCCCHHHHHHHcC-CCeEEEEECccCCchH
Confidence            34566777889999999999999987 4443322   2221 1233458999988643

>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=92.33  E-value=0.03  Score=41.62  Aligned_cols=26  Identities=12%  Similarity=-0.024  Sum_probs=20.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHhc
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ++.+.-+.+.|+.|+||||++..+..
T Consensus        21 ~~l~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          21 GRGHHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             TCCCSEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcCeEEEEECCCCCcHHHHHHHHHH
Confidence            34444589999999999999998763

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=91.74  E-value=0.049  Score=40.07  Aligned_cols=21  Identities=19%  Similarity=0.045  Sum_probs=18.8

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .-|.+.|++|+|||||+-.|+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~   35 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELV   35 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHH
Confidence            348899999999999999887

>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=91.68  E-value=0.024  Score=45.75  Aligned_cols=25  Identities=16%  Similarity=-0.096  Sum_probs=21.8

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...+|+|=|..|+||||+++.|..
T Consensus         3 m~~lrI~IEG~iGsGKSTl~~~L~~   27 (331)
T d1osna_           3 MGVLRIYLDGAYGIGKTTAAEEFLH   27 (331)
T ss_dssp             EEEEEEEEEESSSSCTTHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4467899999999999999999973

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=91.63  E-value=0.038  Score=45.46  Aligned_cols=27  Identities=22%  Similarity=0.422  Sum_probs=23.0

Q ss_pred             cccCCCcceEEECCCCCChHHHHhHHh
Q psy1174          12 VSNEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        12 ~~~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.++...|+.+||++|+|||+++..|.
T Consensus        38 L~r~~k~n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          38 LLRRTKNNPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             HHCSSCCCCEEEECTTSCHHHHHHHHH
T ss_pred             HhcCCCCCCeEECCCCCCHHHHHHHHH
Confidence            446666789999999999999998776

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.62  E-value=0.053  Score=41.88  Aligned_cols=24  Identities=29%  Similarity=0.176  Sum_probs=20.9

Q ss_pred             CCcceEEECCCCCChHHHHhHHhc
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      +...|.+.|++|+|||+|+++|.+
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcchhHHHHHHH
Confidence            345689999999999999999974

>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=91.38  E-value=0.052  Score=39.73  Aligned_cols=21  Identities=24%  Similarity=0.407  Sum_probs=18.6

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+.|.|++|+|||||+-.++
T Consensus        35 ~~~li~G~pGsGKT~l~lq~~   55 (251)
T d1szpa2          35 SITELFGEFRTGKSQLCHTLA   55 (251)
T ss_dssp             SEEEEEESTTSSHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHH
Confidence            457899999999999998886

>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=91.10  E-value=0.069  Score=42.29  Aligned_cols=25  Identities=20%  Similarity=0.076  Sum_probs=21.2

Q ss_pred             CCCcceEEECCCCCChHHHHhHHhc
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ++.-++.++||+|+|||.|+.+|..
T Consensus        50 ~p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          50 KPVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             SCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCcchhHHHHHHHHh
Confidence            4445789999999999999999963

>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=90.88  E-value=0.058  Score=39.71  Aligned_cols=22  Identities=18%  Similarity=0.039  Sum_probs=19.1

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .-|.+.|++|+|||||.-.|+.
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            3478999999999999998873

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=90.80  E-value=0.069  Score=43.37  Aligned_cols=21  Identities=29%  Similarity=0.325  Sum_probs=19.4

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.+.+.||+|+|||+++.+|.
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~  175 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALL  175 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            468999999999999999997

>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=90.48  E-value=0.06  Score=43.33  Aligned_cols=22  Identities=18%  Similarity=0.039  Sum_probs=19.8

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .++|+|=|..|+||||+++.|.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La   25 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLV   25 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHT
T ss_pred             ceEEEEECCcCCCHHHHHHHHH
Confidence            3569999999999999999996

>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=90.41  E-value=0.064  Score=39.89  Aligned_cols=21  Identities=19%  Similarity=0.064  Sum_probs=18.6

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .-|++=|.-||||||+++.|.
T Consensus         4 k~I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHH
Confidence            348999999999999999886

>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=90.36  E-value=0.062  Score=40.50  Aligned_cols=22  Identities=18%  Similarity=0.016  Sum_probs=19.5

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+++.|++++|||+++.+|++
T Consensus        54 n~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          54 NCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHHH
Confidence            3589999999999999999974

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=90.33  E-value=0.071  Score=38.86  Aligned_cols=21  Identities=19%  Similarity=0.047  Sum_probs=18.6

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .-|.+.|++|+|||||.-.|+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~   36 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELI   36 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHH
Confidence            348899999999999998887

>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=90.16  E-value=0.094  Score=42.53  Aligned_cols=25  Identities=20%  Similarity=0.221  Sum_probs=22.7

Q ss_pred             cCCCcceEEECCCCCChHHHHhHHh
Q psy1174          14 NEISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        14 ~~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.++.|+.++||+|+|||-|..+|.
T Consensus        65 ~~p~~niLfiGPTGvGKTElAk~LA   89 (364)
T d1um8a_          65 ELSKSNILLIGPTGSGKTLMAQTLA   89 (364)
T ss_dssp             TCCCCCEEEECCTTSSHHHHHHHHH
T ss_pred             cCCCcceeeeCCCCccHHHHHHHHH
Confidence            4577899999999999999999996

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=89.91  E-value=0.048  Score=43.04  Aligned_cols=22  Identities=32%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             cceEEECCCCCChHHHHhHHhc
Q psy1174          18 SYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+|.++|++|+|||||+++|.+
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            4689999999999999998863

>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=89.62  E-value=0.084  Score=42.65  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=19.4

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+.+.|+|.+|+|||+++..|+
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li   71 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELA   71 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHH
Confidence            4569999999999999998776

>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=89.50  E-value=0.087  Score=38.89  Aligned_cols=21  Identities=14%  Similarity=0.420  Sum_probs=18.5

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+.|.|++|+|||||.-.++
T Consensus        37 ~~~li~G~pGsGKT~~~lq~~   57 (254)
T d1pzna2          37 AITEVFGEFGSGKTQLAHTLA   57 (254)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHH
Confidence            357899999999999988776

>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=89.43  E-value=0.097  Score=39.70  Aligned_cols=20  Identities=25%  Similarity=0.154  Sum_probs=17.6

Q ss_pred             ceEEECCCCCChHHHHhHHh
Q psy1174          19 YPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~   38 (182)
                      .+.|.|++|+|||||+..|.
T Consensus        37 l~vi~G~~G~GKT~~~~~la   56 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQA   56 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            47899999999999988775

>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=89.25  E-value=0.095  Score=42.12  Aligned_cols=23  Identities=22%  Similarity=0.053  Sum_probs=20.5

Q ss_pred             CcceEEECCCCCChHHHHhHHhc
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~g   39 (182)
                      ..+|.|=|..|+||||+++.|..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHS
T ss_pred             eEEEEEECCccCCHHHHHHHHHH
Confidence            46799999999999999999973

>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=88.99  E-value=0.11  Score=38.25  Aligned_cols=21  Identities=24%  Similarity=0.243  Sum_probs=18.6

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+.|.|++|+|||+|+-.++
T Consensus        27 sl~li~G~pGsGKT~l~~qia   47 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFV   47 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            357899999999999998886

>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=88.93  E-value=0.13  Score=39.66  Aligned_cols=24  Identities=21%  Similarity=0.095  Sum_probs=20.6

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      .....|+|.|..|.|||||+..+.
T Consensus        42 ~~~~~v~I~GmgGiGKTtLA~~v~   65 (277)
T d2a5yb3          42 LDSFFLFLHGRAGSGKSVIASQAL   65 (277)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHH
Confidence            345678999999999999999875

>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=88.91  E-value=0.1  Score=37.91  Aligned_cols=21  Identities=19%  Similarity=0.273  Sum_probs=18.6

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+.|.|++|+|||+|+-.+.
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a   55 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSC   55 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            457899999999999998886

>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=88.30  E-value=0.15  Score=37.35  Aligned_cols=21  Identities=14%  Similarity=0.377  Sum_probs=18.7

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+.|.|++|+|||+|+-+++
T Consensus        38 ~~~~i~G~~GsGKT~lalq~~   58 (258)
T d1v5wa_          38 AITEAFGEFRTGKTQLSHTLC   58 (258)
T ss_dssp             EEEEEECCTTCTHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            367999999999999998886

>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=88.20  E-value=0.13  Score=38.33  Aligned_cols=20  Identities=25%  Similarity=0.325  Sum_probs=18.3

Q ss_pred             eEEECCCCCChHHHHhHHhc
Q psy1174          20 PGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        20 V~viG~~~sGKSTLl~~L~g   39 (182)
                      +.+.|++|+|||.|+.++..
T Consensus        39 l~l~G~~G~GKTHLl~A~~~   58 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGN   58 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78999999999999999963

>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=87.78  E-value=0.14  Score=39.60  Aligned_cols=21  Identities=24%  Similarity=0.309  Sum_probs=18.7

Q ss_pred             ceEEECCCCCChHHHHhHHhc
Q psy1174          19 YPGTIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        19 ~V~viG~~~sGKSTLl~~L~g   39 (182)
                      .+.+.|+.++|||+|+++|..
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478899999999999999974

>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=87.78  E-value=0.11  Score=39.60  Aligned_cols=17  Identities=18%  Similarity=0.192  Sum_probs=14.3

Q ss_pred             cceEEECCCCCChHHHH
Q psy1174          18 SYPGTIGHVAHGKSTVV   34 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl   34 (182)
                      .++.|+|.+|+||||.+
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            45789999999999864

>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=87.54  E-value=0.16  Score=36.66  Aligned_cols=21  Identities=14%  Similarity=0.050  Sum_probs=17.7

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+.|.|++|+|||+|+-.++
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            457899999999999987654

>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=87.50  E-value=0.11  Score=39.98  Aligned_cols=18  Identities=17%  Similarity=0.159  Sum_probs=14.8

Q ss_pred             CcceEEECCCCCChHHHH
Q psy1174          17 SSYPGTIGHVAHGKSTVV   34 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl   34 (182)
                      .-.+.|.|.+||||||.+
T Consensus        24 ~g~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          24 EGPLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             SSCEEEEECTTSCHHHHH
T ss_pred             CCCEEEEecCCccHHHHH
Confidence            345789999999999765

>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=87.50  E-value=0.4  Score=36.91  Aligned_cols=21  Identities=19%  Similarity=0.229  Sum_probs=17.9

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+-+.|++++|||||+=.+.
T Consensus        55 ~itei~G~~gsGKTtl~l~~~   75 (263)
T d1u94a1          55 RIVEIYGPESSGKTTLTLQVI   75 (263)
T ss_dssp             SEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEecCCCcHHHHHHHHHH
Confidence            356899999999999987775

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=86.99  E-value=0.21  Score=37.46  Aligned_cols=21  Identities=14%  Similarity=0.188  Sum_probs=17.7

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ....|.|++|+|||||+-.|.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHH
Confidence            346799999999999988764

>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=86.50  E-value=0.24  Score=36.94  Aligned_cols=22  Identities=14%  Similarity=0.155  Sum_probs=18.6

Q ss_pred             CcceEEECCCCCChHHHHhHHh
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +..+.+.|++|+||||++.++.
T Consensus        34 ~~~~Ll~Gp~G~GKtt~a~~~~   55 (239)
T d1njfa_          34 HHAYLFSGTRGVGKTSIARLLA   55 (239)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHH
T ss_pred             CeeEEEECCCCCcHHHHHHHHH
Confidence            3347788999999999999886

>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=85.42  E-value=0.25  Score=38.95  Aligned_cols=24  Identities=17%  Similarity=0.165  Sum_probs=20.0

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +|.-++.++|++|+|||.|...|.
T Consensus        51 kp~~~~lf~Gp~G~GKt~lak~la   74 (315)
T d1qvra3          51 RPIGSFLFLGPTGVGKTELAKTLA   74 (315)
T ss_dssp             SCSEEEEEBSCSSSSHHHHHHHHH
T ss_pred             CCceEEEEECCCcchHHHHHHHHH
Confidence            344467899999999999999886

>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=85.10  E-value=1.4  Score=33.79  Aligned_cols=21  Identities=29%  Similarity=0.309  Sum_probs=18.0

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +-+-+.|++++|||||+-.+.
T Consensus        58 ~itei~G~~~sGKT~l~l~~~   78 (268)
T d1xp8a1          58 RITEIYGPESGGKTTLALAIV   78 (268)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEecCCccchHHHHHHHH
Confidence            346899999999999987776

>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=83.29  E-value=0.3  Score=38.93  Aligned_cols=23  Identities=26%  Similarity=0.268  Sum_probs=18.4

Q ss_pred             CcceE-EECCCCCChHHHHhHHhc
Q psy1174          17 SSYPG-TIGHVAHGKSTVVKAISG   39 (182)
Q Consensus        17 ~~~V~-viG~~~sGKSTLl~~L~g   39 (182)
                      ..++. +.|++|+|||.|..+|.+
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHH
Confidence            34444 469999999999999974

>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=82.55  E-value=0.35  Score=32.44  Aligned_cols=23  Identities=26%  Similarity=0.073  Sum_probs=18.1

Q ss_pred             CCcceEEECCCCCChHHHHhHHh
Q psy1174          16 ISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        16 ~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ...+..+.+++|+|||+++-.++
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHH
Confidence            34567889999999999876544

>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=81.99  E-value=0.42  Score=38.38  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=17.0

Q ss_pred             CcceEEECCCCCChHHHHhHH
Q psy1174          17 SSYPGTIGHVAHGKSTVVKAI   37 (182)
Q Consensus        17 ~~~V~viG~~~sGKSTLl~~L   37 (182)
                      .+.+.|.|++|+||||++..+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHH
Confidence            345789999999999988554

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=81.75  E-value=0.63  Score=35.00  Aligned_cols=21  Identities=24%  Similarity=0.173  Sum_probs=18.3

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +.+.|.|+..+||||+++++.
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEeccCchhhHHHHHHHH
Confidence            457899999999999999874

>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=80.89  E-value=1.6  Score=33.43  Aligned_cols=21  Identities=24%  Similarity=0.178  Sum_probs=17.5

Q ss_pred             cceEEECCCCCChHHHHhHHh
Q psy1174          18 SYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        18 ~~V~viG~~~sGKSTLl~~L~   38 (182)
                      ..+-+.|++++|||||+=.+.
T Consensus        61 ~i~e~~G~~~~GKT~l~l~~~   81 (269)
T d1mo6a1          61 RVIEIYGPESSGKTTVALHAV   81 (269)
T ss_dssp             SEEEEECSSSSSHHHHHHHHH
T ss_pred             eeEEEecCCCcHHHHHHHHHH
Confidence            346899999999999986665

>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=80.39  E-value=0.55  Score=32.20  Aligned_cols=24  Identities=4%  Similarity=-0.150  Sum_probs=21.1

Q ss_pred             CCCcceEEECCCCCChHHHHhHHh
Q psy1174          15 EISSYPGTIGHVAHGKSTVVKAIS   38 (182)
Q Consensus        15 ~~~~~V~viG~~~sGKSTLl~~L~   38 (182)
                      +....|-+-|-.++|||||.++|.
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~   27 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALL   27 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHH
Confidence            456788999999999999999995